SII-SWORD/CoKE huggingface dataset:
Pfam PF17081: Suppressor of PMA 1-7 protein (family)
SOP4 is a family of fungal ER membrane proteins that regulate the quality control and intracellular transport of Pma1-7, a mutant plasma membrane ATPase.
Pfam PF17920: Tetracyclin repressor-like, C-terminal domain (domain)
TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. The TetR proteins identified in overm ultiple genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the C-terminal domain found in a number of different TetR transcription regulator proteins found in Actinobacteria. TetR regulates the expression of the membrane-associated tetracycline resistance protein, TetA, which exports the tetracycline antibiotic out of the cell before it can attach to the ribosomes and inhibit protein synthesis. TetR blocks transcription from the genes encoding both TetA and TetR in the absence of antibiotic. The C-terminal domain is multi-helical and is interlocked in the homodimer with the helix-turn-helix (HTH) DNA-binding domain.
Pfam PF07532: Bacterial Ig-like domain (group 4) (domain)
This family consists of bacterial domains with an Ig-like fold. Members of this family are found in a variety of bacterial surface proteins.
Pfam PF11651: P22 coat protein - gene protein 5 (family)
This family of proteins represents gene product 5 from bacteriophage P22. This protein is involved in the formation of the pro-capsid shells in the bacteriophage. In total, there are 415 molecules of the coat protein which are arranged in an icosahedral shell.
Pfam PF07750: GcrA cell cycle regulator (family)
GcrA is a master cell cycle regulator that, together with CtrA (see [pfam:PF00072] and [pfam:PF00486]), is involved in controlling cell cycle progression and asymmetric polar morphogenesis. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA.  The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes.  More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery.
Pfam PF22058: Pullulanase X25 domain (domain)
X25 is a domain inserted in X45 domain of  Bacillus acidopullulyticus pullulanase. This type of insertion is common in proteins containing X45-X25 pair. X25 domain itself is also found in tandem copies, such as in the highly modular amylopullulanase from Geobacillus stearothermophilus. It is likely that this domain is a carbohydrate-binding domain which targets mixed alpha-1,6/alpha-1,4 linked D-glucan polysaccharides such as pullulan.
Pfam PF21076: Glutamate dehydrogenase, ACT2 domain (domain)
Glutamate dehydrogenases (GDHs) are a broadly distributed group of enzymes that catalyse the reversible oxidative deamination of glutamate to ketoglutarate and ammonia. The structure of GDH from Mycobacterium smegmatis revealed that it has a long N- and C-terminal segments flanking the catalytic core, comprising several domains. The flexible N-terminal domain comprises thre ACT-like (ACT1-3) and PAS-type domains which could act as metabolic sensors for allosteric regulation. This entry represents the ACT2 domain.
Pfam PF10528: GLEYA domain (domain)
The GLEYA domain is related to lectin-like binding domains found in the S. cerevisiae Flo proteins and the C. glabrata Epa proteins. It is a carbohydrate-binding domain that is found in fungal adhesins (also referred to as agglutinins or flocculins). Adhesins with a GLEYA domain possess a typical N-terminal signal peptide and a domain of conserved sequence repeats, but lack glycosylphosphatidylinositol (GPI) anchor attachment signals. They contain a conserved motif G(M/L)(E/A/N/Q)YA, hence the name GLEYA. Based on sequence homology, it is suggested that the GLEYA domain would predominantly contain beta sheets. The GLEYA domain is also found in S. pombe protein [swissprot:Q92344], thought to be a kinetochore portein (Sim4 complex subunit), however no direct evidence for kinetochore association has been found. Furthermore, a global protein localisation study in S. pombe identified it as a secreted protein localized to the Golgi complex.
Pfam PF24478: DCDC1, second doublecortin-like domain (domain)
This is the second doublecortin-like domain (DCX2) of human Doublecortin domain-containing protein 1 (DCDC1), a microtubule -binding protein which plays an important role in mediating dynein-dependent transport of RAB8A-positive vesicles to the midbody during cytokinesis. This domain shows an ubiquitin-like tertiary fold. Members of this group are mainly found in animals.
Pfam PF03205: Molybdopterin guanine dinucleotide synthesis protein B (domain)
This protein contains a P-loop.
Pfam PF17914: HopA1 effector protein family (domain)
This family includes the HopA1 effector protein from Pseudomonas syringae. Structurally this protein has an alpha + beta fold. The effector protein HopA1 was shown to affect the EDS1 complex by binding EDS1 directly and activating the immune response signaling pathway.
Pfam PF08387: FBD (repeat)
This region is found at the C-terminal of F-box domain containing proteins ([pfam:PF00646]) from plants; its precise function is unknown, but it has been associated with nuclear processes. Proteins in this entry are involved in the ubiquitin-proteasome pathway. They function as components of SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complexes. They have a F-box domain at the N-terminal ([pfam:PF00646]). AtMIF1 (also known as F-box protein AT3G62230) from Arabidopsis, physically interacts with MYB domain protein 5 (MYB5), which results in MYB5 degradation representing a new regulatory pathway, 26S proteasome-AtMIF1-MYB5 that regulates oil content of seeds, increasing their oil content without affecting plant growth. This domain has a LRR-like fold.
Pfam PF10982: Protein of unknown function (DUF2789) (family)
This bacterial 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 PF05051: Cytochrome C oxidase copper chaperone (COX17) (family)
Cox17 is essential for the assembly of functional cytochrome c oxidase (CCO) and for delivery of copper ions to the mitochondrion for insertion into the enzyme in yeast. The structure of Cox17 shows the protein to have an unstructured N-terminal region followed by two helices and several unstructured C-terminal residues. The Cu(I) binding site has been modelled as two-coordinate with ligation by conserved residues Cys23 and Cys26.
Wikipedia: The enzyme cytochrome c oxidase or Complex IV is a large transmembrane protein complex found in bacteria, archaea, and the mitochondria of eukaryotes.
Pfam PF17656: FlgA N-terminal domain (domain)
This entry represents the N-terminal domain of FlgA from Salmonella enterica and similar sequences. It is described as D1 domain in.
Pfam PF24020: Family of unknown function (DUF7333) (family)
This entry represents uncharacterised archaeal proteins. They are predicted to fold into an alpha-helical hairpin.
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 PF22923: Kinesin-like protein KIF2A-like, N-terminal (domain)
This domain is found at the N-terminal end of human Kinesin-like protein KIF2A and similar animal proteins with a kinesin motor domain ([pfam:PF00225]). KIF2A, which is required for normal progression through mitosis and for normal brain development, is a plus end-directed microtubule-dependent motor protein with microtubule depolymerisation activity. This domain is predicted to adopt an SH3 fold.
Pfam PF09154: Alpha-amylase C-terminal (domain)
This entry represents a C-terminal domain associated with prokaryotic alpha-amylases, which adopt a secondary structure consisting of an eight-stranded antiparallel beta-sheet containing a Greek key motif. Their exact function has not, as yet, been determined.
Pfam PF11764: COMPASS (Complex proteins associated with Set1p) component N (domain)
The n-SET or N-SET domain is a component of the COMPASS complex, associated with SET1, conserved in yeasts and in other eukaryotes up to humans.  The COMPASS complex functions to methylate the fourth lysine of Histone 3 and for the silencing of genes close to the telomeres of chromosomes. This domain promotes trimethylation in conjunction with an RRM domain and is necessary for binding of the Spp1 component of COMPASS into the complex.
Pfam PF14880: Cytochrome oxidase c assembly (family)
COX14 plays an essential role in cytochrome oxidase assembly. The COX14 product is a low-molecular weight membrane protein of mitochondria, but it is not a subunit of cytochrome oxidase. Orthology-prediction methods have identified the vertebrate C12orf62 orthologues to be orthologues of the yeast COX14.
Wikipedia: The enzyme cytochrome c oxidase or Complex IV is a large transmembrane protein complex found in bacteria, archaea, and the mitochondria of eukaryotes.
Pfam PF13267: Protein of unknown function (DUF4058) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 244 and 264 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 PF17485: Satellite RNA 48 kDa protein (family)
Satellite RNAs (satRNAs) are short RNA molecules, usually <1,500 nt, that depend on cognate helper viruses for replication, encapsidation, movement, and transmission, but most share little or no sequence homology to the helper viruses. In contrast, satellite viruses are satRNAs that encode and are encapsidated in their own capsid proteins (CPs). Members of this family are nonstructural proteins of 48kDa in size which been shown to be involved in the replication of the sat-RNA. They are found in tomato black ring virus (TBRV).
Pfam PF15701: Domain of unknown function (DUF4668) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 142 and 211 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 PF09141: Talin, middle domain (domain)
Members of this family adopt a structure consisting of five alpha helices that fold into a bundle. They contain a Vinculin binding site (VBS) composed of a hydrophobic surface spanning five turns of helix four. Activation of the VBS causes subsequent recruitment of Vinculin, which enables maturation of small integrin/talin complexes into more stable adhesions. Formation of the complex between VBS and Vinculin requires prior unfolding of this middle domain: once released from the talin hydrophobic core, the VBS helix is then available to induce the 'bundle conversion' conformational change within the vinculin head domain thereby displacing the intramolecular interaction with the vinculin tail, allowing vinculin to bind actin.
Wikipedia: Talin is a high-molecular-weight cytoskeletal protein concentrated at regions of cell–substratum contact and, in lymphocytes, at cell–cell contacts. Discovered in 1983 by Keith Burridge and colleagues, talin is a ubiquitous cytosolic protein that is found in high concentrations in focal adhesions. It is capable of linking integrins to the actin cytoskeleton either directly or indirectly by interacting with vinculin and α-actinin.
Pfam PF04685: Glycosyl-hydrolase family 116, catalytic region (repeat)
This represents a family of archaeal, bacterial and eukaryotic glycosyl hydrolases, that belong to superfamily GH116. The primary catabolic pathway for glucosylceramide is catalysis by the lysosomal enzyme glucocerebrosidase. In higher eukaryotes, glucosylceramide is the precursor of glycosphingolipids, a complex group of ubiquitous membrane lipids. Mutations in the human protein cause motor-neurone defects in hereditary spastic paraplegia. The catalytic nucleophile, identified in UniProtKB:Q97YG8_SULSO, is a glutamine-335, with the likely acid/base at Asp-442 and the aspartates at Asp-406 and Asp-458 residues also playing a role in the catalysis of glucosides and xylosides that are beta-bound to hydrophobic groups. The family is defined as GH116, which presently includes enzymes with beta-glucosidase, [ec:3.2.1.21], beta-xylosidase, [ec:3.2.1.37], and glucocerebrosidase [ec:3.2.1.45] activity.
Pfam PF05744: Benyvirus P25/P26 protein (family)
This family consists of P25 and P26 proteins from the beet necrotic yellow vein viruses.
Pfam PF22797: SlpA domain II (domain)
This domain is found in homologues of SlpA protein from Lactobacillus acidophilus. This domain is involved in the self-assembly and dimerization of the S-layer. It adopts an alpha/beta structure consisting of a curved mixed beta-sheet and two alpha-helices packed on it. It has a partial structural similarity to the cadherin ectodomains comprising the curved beta-sheet and differs significantly in the central part that adopts an alpha-helical conformation instead of extended beta.
Pfam PF15730: Domain of unknown function (DUF4680) (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 65 and 178 amino acids in length. There are two conserved sequence motifs: VISRM and ENE.
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 PF21526: PGRS repeats (repeat)
PE_PGRSs are a large family of Mtb proteins implicated in tuberculosis (TB) pathogenesis that show a modular structure: the N-terminal PE domain, highly homologous to the domain found in tens of others PE proteins and whose structure has been already solved by crystallography; a C-terminal domain that is unique for each protein; the polymorphic glycine-rich domain (PGRS) that varies in length from few tens to more than 1,000 amino acids.
Pfam PF22563: Inactive Receiver domain (domain)
iREC is predicted to dimerize with active counterparts as part of signal transduction relays in a subset of TOTE (TPR, OB, TBP, Effector) biological conflict systems.
Pfam PF08070: DTHCT (NUC029) region (family)
The DTCHT region is the C-terminal part of DNA gyrases B / topoisomerase IV / HATPase proteins. This region is composed of quite low complexity sequence.
Pfam PF22187: Domain of unknown function (DUF6946) (domain)
This domain is found in uncharacterised bacterial proteins either standalone or in combination with other domains. It is distantly related to the type II restriction endonucleases with predicted similar active site architecture. These proteins are most likely endonucleases based on the strict conservation of the putative active site residues.
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 PF17978: RING/Ubox like zinc-binding domain (domain)
This is a RING zinc finger domain found in parkin proteins. Parkin consists of a ubiquitin-like (Ubl) domain and a 60-amino acid linker followed by RING0 and three additional zinc finger domains characteristic of the RBR family. This entry relates to RING1 zinc binding domain. The RING1 domain displays the C3HC4 cross-brace motif characteristic of RING domains. The N-terminal Ubl domain binds to RING1.
Wikipedia: In molecular biology, a RING (short for Really Interesting New Gene) finger domain is a protein structural domain of zinc finger type which contains a C3HC4 amino acid motif which binds two zinc cations (seven cysteines and one histidine arranged non-consecutively). This protein domain contains 40 to 60 amino acids. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Conversely, proteins with RING finger domains are the largest type of ubiquitin ligases in the human genome.
Pfam PF08206: Ribonuclease B OB domain (domain)
This family includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.
Pfam PF08499: 3'5'-cyclic nucleotide phosphodiesterase N-terminal (family)
This domain is found to the N-terminus of the calcium/calmodulin-dependent 3'5'-cyclic nucleotide phosphodiesterase domain ([pfam:PF00233]).
Pfam PF24480: Tubulin polyglutamylase complex subunit 1-like, C-terminal (domain)
This is the C-terminal domain of human Tubulin polyglutamylase complex subunit 1 (TPGS1) and similar animal proteins. TPGS1 is a subunit of the tubulin polyglutamylase complex (TPGC), which mediates cilia and flagella polyglutamylation which is essential for their biogenesis and motility. This domain is predicted to adopt a mainly alpha-helical configuration.
Pfam PF16009: Domain of unknown function (DUF4779) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in eukaryotes. Proteins in this family are typically between 234 and 351 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 PF04896: Ammonia monooxygenase/methane monooxygenase, subunit C (family)
Ammonia monooxygenase plays a key role in the nitrogen cycle and degrades a wide range of hydrocarbons and halogenated hydrocarbons. This family represents the AmoC subunit. It also includes the particulate methane monooxygenase subunit PmoC from methanotrophic bacteria.
Pfam PF15368: Spermatogenesis family BioT2 (family)
BioT2 is a family of eukaryotic proteins expressed only in the testes. BioT2 is found abundantly in five types of murine cancer cell lines, suggesting it plays a role in testes development as well as tumourigenesis.
Pfam PF19144: Family of unknown function (DUF5826) (family)
This family of unknown function is mostly found in prasinoviruses and is likely to represent membrane  proteins with two transmembrane regions.
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 PF20198: Family of unknown function (DUF6561) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteriophages, mainly in Myovirus. Proteins in this family are approximately 80 amino acids in length. There are two conserved sequence motifs: EP and PxxxxxxxY.
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 PF13832: PHD-zinc-finger like domain (domain)
Wikipedia: The PHD finger was discovered in 1993 as a Cys4-His-Cys3 motif in the plant homeodomain proteins HAT3.1 in Arabidopsis and maize ZmHox1a. 
The PHD zinc finger motif resembles the metal binding RING domain (Cys3-His-Cys4) and FYVE domain. It occurs as a single finger, but often in clusters of two or three, and it also occurs together with other domains, such as the chromodomain and the bromodomain.
Pfam PF23336: Transcriptional regulator TbsP-like, C-terminal HTH domain (domain)
This domain is found at the C-terminal of the putative transcriptional regulator TbsP from Halobacterium volcanii ([swissprot:D4GXF9], also known as HVO_2861) and similar sequences predominantly found in Halobacteria. TbsP is required for adhesion to abiotic surfaces (i.e., biofilm formation) and maintains wild-type cell morphology and motility. This is predicted to MarR-type helix-turn-helix (HTH) structure.
Pfam PF20348: Family of unknown function (DUF6643) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 144 and 171 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 PF11469: Ribonuclease III (family)
This is a family of archaeal ribonuclease_III proteins.
Pfam PF11787: Aft1 HRR domain (disordered)
This domain is found in the transcription factor Aft1 which is required for a wide range of stress responses.  The HRR domain is involved in meiotic recombination.  It has been shown to be necessary and sufficient to repress recombination.