SII-SWORD/CoKE huggingface dataset:
Pfam PF18422: Tumor necrosis factor receptor member 16 trans-membrane domain (domain)
This is the helical trans-membrane domain found in tumor necrosis factor receptor superfamily member 16 (also known as p75 neurotrophin receptor , and nerve growth factor receptor-NGFR). p75 plays prominent biological functions such the induction of cell death, and it demonstrates several other activities, like survival, axonal growth, and cell migration. The trans-membrane (TM) domain of p75 stabilizes the receptor dimers through a disulfide bond, essential for the NGF signalling Structural and mutational analysis indicate that Cys257 plays the key role in this stabilisation process. Furthermore, although the p75-C257A mutant is still capable to form dimers and bind to NGF, it is unable to transduce the signals triggered by NGF binding in some cell signalling paradigms.
Pfam PF09186: Domain of unknown function (DUF1949) (domain)
Members of this family pertain to a set of functionally uncharacterised hypothetical bacterial proteins. They adopt a ferredoxin-like fold, with a beta-alpha-beta-beta-alpha-beta arrangement.
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 PF03276: Spumavirus gag protein, N-terminal (domain)
This is the conserved N-terminal domain of the Gag polyprotein from Foamyviruses (FVs) or Spuma-retroviruses. Gag is the major structural protein required for genome packaging virion assembly, trafficking and egress. This region corresponds to the Env-binding domain containing the cytoplasmic targeting and retention sequence (CTRS).
Wikipedia: Group-specific antigen, or gag, is the polyprotein that contains the core structural proteins of an Ortervirus. It was named as such because scientists used to believe it was antigenic. Now it is known that it makes up the inner shell, not the envelope exposed outside. It makes up all the structural units of viral conformation and provides supportive framework for mature virion.
Pfam PF24974: Domain of unknown function (DUF7771) (domain)
This domain is found in uncharacterised plant proteins. It is predicted to fold into a beta-sandwich with structural similarity to Transthyretin-like domains in particular to SPH (Self-Incompatibility Protein Homologue) 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 PF11661: Protein of unknown function (DUF2986) (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 PF09130: Domain of unknown function (DUF1932) (domain)
This domain is found in a set of hypothetical prokaryotic proteins. Its exact function has not, as yet, been described.
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 PF24737: Domain of unknown function (DUF7688) (domain)
This entry represents a small family of uncharacterised protein found in bacteria. They are predicted to adopt alpha+beta structure defined as beta(2)alpha(2)beta(2) structural elements in which the beta-strands form an antiparallel beta-sheet.The function of these proteins 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 PF16669: Tetratricopeptide repeat protein 5 OB fold domain (domain)
This OB fold domain is located at the C-terminus of Tetratricopeptide repeat protein 5 and is required for effective p53 response.
Pfam PF00957: Synaptobrevin (family)
The process of vesicular membrane fusion in eukaryotic cells depends on a conserved fusion machinery called SNARE (soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptors). In the process of vesicle docking, proteins present on the vesicle (v-SNARE) have to bind to their counterpart on the target membrane (t-SNARE) to form a core complex that can then recruit the soluble proteins NSF and SNAP. This so called fusion complex can then disassemble after ATP hydrolysis mediated by the ATPase NSF in a process that leads to membrane fusion and the release of the vesicle contents. v-SNAREs include proteins homologous to synaptobrevin .

Structurally the SNARE complex is generally a four-helix bundle comprised of three coiled-coil-forming domains from t-SNAREs and one from v-SNARE. Although sequence similarity in the t- and v-SNARE coiled-coil homology domains are low there is a striking conservation of the so-called heptad repeat that is of central importance in forming a coiled-coil structure. In a coiled-coil motif, seven residues constitute a canonical heptad and are designated 'a' through 'g', with 'a' and 'd' being occupied by hydrophobic residues. The association of the four Î±-helices in the SNARE fusion complex structure produces highly conserved layers of interacting amino acid side chains in the centre of the four-helix bundle. The centre of the bundle is made up of 15 hydrophobic layers from the 'a' and 'd' positions of the heptad repeats of the coiled-coil-forming domains, whereas the central 'ionic' layer is highly conserved and polar in nature, containing a glutamine residue in the three t-SNAREs and an arginine in the v-SNARE, hence the classification of v- and t-SNAREs as R- and Q-SNAREs, respectively. The v-SNARE coiled-coil homology domain is around 60 amino acids in length .

The entry represents the entire v-SNARE coiled-coil homology domain.
Wikipedia: Synaptobrevins are small integral membrane proteins of secretory vesicles with molecular weight of 18 kilodalton (kDa) that are part of the vesicle-associated membrane protein (VAMP) family.
Pfam PF02237: Biotin protein ligase C terminal domain (domain)
The function of this structural domain is unknown.  It is found to the C terminus of the biotin protein ligase catalytic domain [pfam:PF01317].
Wikipedia: In molecular biology, the Cofactor transferase family is a family of protein domains that includes biotin protein ligases, lipoate-protein ligases A, octanoyl-(acyl carrier protein):protein N-octanoyltransferases, and lipoyl-protein:protein N-lipoyltransferases. The metabolism of the cofactors Biotin and lipoic acid share this family. They also share the target modification domain, and the sulfur insertion enzyme.
Pfam PF18139: SLOG in TRPM (domain)
Family in the SLOG superfamily, found in several eukaryotic channels including diverse ciliate channels and the TRPM class of animal ion channels. Positioned near the N-terminus of all TRPM channels, it is predicted to play a regulatory role for the channel in potentially recognizing a universal nucleotide or nucleotide-derived ligand.
Pfam PF12576: Protein of unknown function (DUF3754) (family)
This domain family is found in bacteria, archaea and eukaryotes, and is typically between 135 and 166 amino acids in length. There is a single completely conserved residue 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 PF03412: Peptidase C39 family (family)
Lantibiotic and non-lantibiotic bacteriocins are synthesised as precursor peptides containing N-terminal extensions (leader peptides) which are cleaved off during maturation. Most non-lantibiotics and also some lantibiotics have leader peptides of the so-called double-glycine type. These leader peptides share consensus sequences and also a common processing site with two conserved glycine residues in positions -1 and -2. The double- glycine-type leader peptides are unrelated to the N-terminal signal sequences which direct proteins across the cytoplasmic membrane via the sec pathway. Their processing sites are also different from typical signal peptidase cleavage sites, suggesting that a different processing enzyme is involved. Peptide bacteriocins are exported across the cytoplasmic membrane by a dedicated ATP-binding cassette (ABC) transporter. The ABC transporter is the maturation protease  and its proteolytic domain resides in the N-terminal part of the protein.  This peptidase domain is found in a wide range of ABC transporters, however the presumed catalytic cysteine and histidine are not conserved in all members of this family.
Pfam PF14348: Domain of unknown function (DUF4400) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 209 and 249 amino acids in length. There is a single completely conserved residue 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 PF06096: Baculoviridae 8.2 KDa protein (family)
Family of proteins from various Baculoviruses with undetermined function.
Pfam PF12325: TATA element modulatory factor 1 TATA binding (coiled_coil)
This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family.
Pfam PF05216: UNC-50 family (family)
Gmh1p ([swissprot:P36125]) from S. cerevisiae is located in the Golgi membrane and interacts with ARF exchange factors.
Pfam PF04514: Bluetongue virus non-structural protein NS2 (family)
This family includes NS2 proteins from other members of the Orbivirus genus.  NS2 is a non-specific single-stranded RNA-binding protein that forms large homomultimers and accumulates in viral inclusion bodies of infected cells. Three RNA binding regions have been identified in Bluetongue virus serotype 17 ([swissprot:P33473]) at residues 2-11, 153-166 and 274-286. NS2 multimers also possess nucleotidyl phosphatase activity. The precise function of NS2 is not known, but it may be involved in the transport and condensation of viral mRNAs.
Pfam PF17776: NLRC4 helical domain HD2 (domain)
This entry represents a helical domain found in the NLRC4 protein and NOD2 protein.
Pfam PF21951: T-cell receptor gamma alternate reading frame protein (family)
This protein family includes human T-cell receptor gamma alternate reading frame protein (TARP) and similar sequences from vertebrates. TARP is a 7-kDa protein with five leucine residues in heptad repeats followed by a basic region. It is expressed at higher levels in several types of cancerous cells.
Pfam PF20504: Integrator complex subunit 14, alpha-helical domain (domain)
This entry represents the C-terminal alpha-helical domain of Integrator complex subunit 14 (IntS14), a component of the integrator complex which is involved in the transcription of small nuclear RNAs (snRNA) and their 3'-box dependent processing. This complex is also involved in the 3'-end processing of the U7 snRNA, and the spliceosomal snRNAs U1 and U5. IntS14 interacts with IntS13; both of them consist of an N-terminal VWA domain followed by a central beta-barrel domain and a C-terminal alpha-helical domain, which are connected through a linker devoid of secondary structure elements. This domain contribute to binding by packing against the beta-barrel of IntS13.
Pfam PF22588: Histidine kinase sensor domain (domain)
This entry represents a sensor domain found in histidine kinase receptors members of subfamily C. It folds into an alpha/beta structure consisting of a curved beta-sheet and an alpha-helix packed on the concave side of it.
Pfam PF17850: CysA C-terminal regulatory domain (domain)
ABC (ATP-binding cassette) transporters share a common architecture comprising two variable hydrophobic transmembrane domains (TMDs) that form the translocation pathway and two conserved hydrophilic ABC-ATPases that hydrolyze ATP. This is the C-terminal regulatory domain found at the ATPase subunit of CysA, a putative sulfate ABC transporter from Alicyclobacillus acidocaldarius. The regulatory domain of CysA is built up of an elongated beta-barrel composed of two beta-sandwiches that form a common hydrophobic core.
Pfam PF16181: RelB transactivation domain (domain)
This domain is the transactivation domain of the transcription factor RelB.
Pfam PF23301: Platelet endothelial aggregation receptor 1-like, EGF domain (domain)
This domain is found in human Platelet endothelial aggregation receptor 1 (PEAR1L).
Pfam PF03676: Phagosome assembly factor 1 (family)
PHAF1 and BCAS3 form a complex that affects the recruitment of several core autophagy proteins to the phagophore assembly site.
Pfam PF12761: Actin cytoskeleton-regulatory complex protein END3 (family)
Endocytosis is accomplished through the sequential recruitment at endocytic sites of proteins that drive cargo sorting, membrane invagination and vesicle release. End3p is part of the coat module protein complex Pan1, along with Pan1p, Sla1p, and Sla2p. The proteins in this complex are regulated by phosphorylation events. End3p also regulates the cortical actin cytoskeleton. The subunits of the Pan1 complex are homologous to mammalian intersectin.
Pfam PF08404: Baculoviridae P74 N-terminal (family)
This domain is found at the N-terminus of P74 occlusion-derived virus (ODV) envelope proteins which are required for oral infectivity.  The envelope proteins are found in baculoviruses which are insect pathogens.  The C-terminus of P74 is anchored to the membrane whereas the N-terminus is exposed to the virion surface.  Furthermore P74 is unusual for a virus envelope protein as it lacks an N-terminal localisation signal sequence.      Also see [pfam:PF04583].
Pfam PF20951: Influenza RNA polymerase PB2 6th domain (domain)
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 6th domain of PB2.
Pfam PF06370: Protein of unknown function (DUF1069) (family)
This family consists of several Maize streak virus 21.7 kDa proteins. The function of this family is unknown.
Pfam PF11228: Protein of unknown function (DUF3027) (family)
This family of proteins with unknown function appears to be restricted to 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 PF02260: FATC domain (family)
The FATC domain is named after FRAP, ATM, TRRAP C-terminal. The solution structure of the FATC domain suggests it plays a role in redox-dependent structural and cellular stability.
Pfam PF12646: Domain of unknown function (DUF3783) (domain)
This presumed domain is functionally uncharacterised. This domain family is found in bacteria, archaea and eukaryotes, and is approximately 60 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 PF24422: Domain of unknown function (DUF7552) (domain)
This domain is found in a group of uncharacterised proteins mainly from Halobacteria. It is frequently found in combination with [pfam:PF24420].
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 PF04227: Indigoidine synthase A like protein (family)
Indigoidine is a blue pigment synthesised by Erwinia chrysanthemi implicated in pathogenicity and protection from oxidative stress. IdgA is involved in indigoidine biosynthesis, but its specific function is unknown. The recommended name for this protein is now pseudouridine-5'-phosphate glycosidase.
Pfam PF07459: CTX phage RstB protein (family)
This family contains a number of RstB proteins approximately 120 residues long, including RstB1 and RstB2, from the Vibrio cholerae phage CTX. Functional analyses indicate that rstB2 is required for integration of the CTXphi phage into the V. cholerae chromosome.
Pfam PF04273: Beta-lactamase hydrolase-like protein, phosphatase-like domain (domain)
This domain is found N-terminal to a beta-lactamase domain, and it may have phosphatase activity. This domain is found in Beta-lactamase hydrolase-like protein from Agrobacterium fabrum, which may play a role in cell adherence or biofilm development.
Pfam PF19215: Coronavirus replicase NSP15, uridylate-specific endoribonuclease (domain)
This entry represents the C-terminal domain of coronavirus non-structural protein 15 (NSP15 or nsp15). NSP15 is encoded by ORF1a/1ab and proteolytically released from the pp1a/1ab polyprotein. This domain exhibits endoribonuclease activity designated EndoU, highly conserved in all known CoVs and is part of the replicase-transcriptase complex that plays important roles in virus replication and transcription. NSP15 is a Uridylate-specific endoribonuclease that cleaves the 5'-polyuridines from negative-sense viral RNA, termed PUN RNA either upstream or downstream of uridylates, at GUU or GU to produce molecules with 2',3'-cyclic phosphate ends. PUN RNA is a CoV MDA5-dependent pathogen-associated molecular pattern (PAMP).
Pfam PF20798: Cysteine methyltransferase effector NleE (family)
Type III secretion system (T3SS) effector NleE from Escherichia coli is a S-adenosyl-L-methionine (SAM)-dependent methyltransferase that inhibits NF-kappa-B-mediated proinflammatory response in the host. Its structure shows an alpha-beta doubly wound topology with a central three-stranded anti-paralleled beta-sheet sandwiched by alpha-helices. This protein family is predominantly found in Enterobacterales.
Pfam PF15201: Progressive rod-cone degeneration (family)
This family of proteins is involved in vision.
Pfam PF13149: Fimbrillin-like (family)
A family of putative fimbrillin proteins found by clustering human gut metagenomic sequences. Analysis of structural comparisons shows this family to be part of the FimbA (CL0450) superfamily of adhesin components or fimbrillins.
Pfam PF17085: Unique cartilage matrix associated protein (family)
UCMA is a secreted cartilage-specific protein located in chromosome 2 that is predominantly expressed in resting chondrocytes. It is secreted into the extracellular matrix as an uncleaved precursor and shows the same restricted distribution pattern in cartilage as UCMA mRNA. This protein is proteolytically processed and contains tyrosine sulfates. It seems to be to be involved in the negative control of osteogenic differentiation of osteochondrogenic precursor cells in peripheral zones of foetal cartilage.
Pfam PF06787: FeGP cofactor biosynthesis protein HcgF (family)
This archaeal family includes the iron guanylylpyridinol (FeGP) cofactor biosynthesis protein HcgF which catalyses  the transesterification of AMP-GP to afford a Cys (HcgF)-S-GP thioester.
Pfam PF17935: Tetracyclin repressor-like, C-terminal domain (domain)
This is the C-terminal domain present in putative TetR transcriptional regulators.
Pfam PF06093: Spt4/RpoE2 zinc finger (domain)
This family consists of several eukaryotic transcription elongation Spt4 proteins as well as archaebacterial RpoE2. Three transcription-elongation factors Spt4, Spt5, and Spt6 are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. Spt4 and Spt5 are tightly associated in a complex, while the physical association of the Spt4-Spt5 complex with Spt6 is considerably weaker. It has been demonstrated that Spt4, Spt5, and Spt6 play roles in transcription elongation in both yeast and humans including a role in activation by Tat. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles.  RpoE2 is one of 13 subunits in the archaeal RNA polymerase. These proteins contain a C4-type zinc finger, and the structure has been solved in. The structure reveals that Spt4-Spt5 binding is governed by an acid-dipole interaction between Spt5 and Spt4, and the complex binds to and travels along the elongating RNA polymerase. The Spt4-Spt5 complex is likely to be an ancient, core component of the transcription elongation machinery.