SII-SWORD/CoKE huggingface dataset:
Pfam PF10605: 3HB-oligomer hydrolase (3HBOH) (family)
D-(-)-3-hydroxybutyrate oligomer hydrolase (also known as 3HB-oligomer hydrolase) functions in the degradation of poly-3-hydroxybutyrate (PHB).  It catalyses the hydrolysis of D(-)-3-hydroxybutyrate oligomers (3HB-oligomers) into 3HB-monomers.
Pfam PF09009: Exotoxin A catalytic (domain)
Members of this family, which are found in prokaryotic exotoxin A, catalyse the transfer of ADP ribose from nicotinamide adenine dinucleotide (NAD) to elongation factor-2 in eukaryotic cells, with subsequent inhibition of protein synthesis.
Pfam PF18199: Dynein heavy chain C-terminal domain (domain)
This family represents the C-terminal domain of dynein heavy chain. This domain is a complex structure comprising six alpha-helices and an incomplete six-stranded antiparallel beta-barrel. The shape of this domain is distinctively flat, spreading over the AAA1, AAA5 and AAA6 domain.
Wikipedia: Dyneins are a family of cytoskeletal motor proteins that move along microtubules in cells. They convert the chemical energy stored in ATP to mechanical work. Dynein transports various cellular cargos, provides forces and displacements important in mitosis, and drives the beat of eukaryotic cilia and flagella. All of these functions rely on dynein's ability to move towards the minus-end of the microtubules, known as retrograde transport; thus, they are called "minus-end directed motors". In contrast, most kinesin motor proteins move toward the microtubules' plus-end, in what is called anterograde transport.
Pfam PF11089: Exopolysaccharide production repressor (family)
SyrA is a small protein located in the cytoplasmic membrane that lacks an apparent DNA binding domain. SyrA mediates the transcriptional up-regulation of exo genes involved in the biosynthesis of the symbiotic exopolysaccharide succinoglycan. It does this through a mechanism which requires a two component system.
Pfam PF15020: CATSPERD, beta-propeller domain (repeat)
The CATSPER (cation channel of sperm) complex is a tetrameric complex consisting of CATSPER1, CATSPER2, CATSPER3 and CATSPER4, it functions as an alkalinisation-activated calcium channel. This complex is involved in sperm cell hyperactivation, a process needed for sperm motility, which is essential late in the preparation of sperm for fertilisation. This complex requires four auxiliary subunits (beta, gamma, delta and epsilon), which play a role in channel assembly. These are multidomain proteins which share a similar domain organisation. This entry represents the beta-propeller domain of the delta subunit (CATSPERD).
Wikipedia: The cation channels of sperm also known as Catsper channels or CatSper, are ion channels that are related to the two-pore channels and distantly related to TRP channels. The four members of this family form voltage-gated Ca2+ channels that seem to be specific to sperm. As sperm encounter the more alkaline environment of the female reproductive tract, CatSper channels become activated by the altered ion concentration. These channels are required for proper fertilization. The study of these channels has been slow because they do not traffic to the cell membrane in many heterologous systems.
Pfam PF09423: PhoD-like phosphatase (domain)
Alkaline phosphatase D (PhoD)  catalyses the reaction: phosphate monoester + H(2)O = an alcohol + phosphate. PhoD is similar to Ca(2+)-dependent phospholipase D , which catalyses the hydrolysis of the ester bond between the phosphatidic acid and alcohol moieties of phospholipids .
PhoD (also known as alkaline phosphatase D/APaseD in Bacillus subtilis) is a secreted phosphodiesterase encoded by phoD of the Pho regulon in Bacillus subtilis. PhoD homologs are found in prokaryotes, eukaryotes, and archaea. PhoD contains a twin arginine (RR) motif and is transported by the Tat (Twin-arginine translocation) translocation pathway machinery (TatAyCy) . Proteins containing this domain also includes the Fusarium oxysporum Fso1 protein .
Pfam PF23305: Domain of unknown function (DUF7082) (domain)
This domain is found in uncharacterised proteins mainly from Fungi. This domain is predicted to adopt a globular structure consisting of a curved beta-sheet and alpha- helices packed on it. This domain is probably distantly related to the N-terminal domain of STE-like transcription factors ([pfam:PF02200]) based on the similarity of their predicted structures. The predicted structure of this domain has a partial similarity to pseudo Winged helix domains.
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 PF10387: Protein of unknown function (DUF2442) (domain)
This family of bacterial and fungal proteins has several members annotated as being putative molybdopterin-guanine dinucleotide biosynthesis protein A; however this could not be verified. Hence the function is not known.  This family also includes the DUF3532 that was found to be related and was merged into this family. Members of this family also fall into the NE0471 N-terminal domain-like superfamily, a family of proteins with a unique fold in SCOP:143880.
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 PF23494: YqeB-like bacterial PH domain (domain)
This family represents a bacterial PH domain from a set of proteins related to YqeB from B.  subtilis. These proteins contain 2 transmembrane helices and bacterial PH domain that includes an unusual alpha/beta/beta/alpha subdomain. The function of these protein is unknown. They contain a C-terminal domain related to an anticodon binding domain found in cysteinyl tRNA ligases. This suggests these proteins may have a role in translation.
Pfam PF02935: Cytochrome c oxidase subunit VIIc (family)
Cytochrome c oxidase, a 13 sub-unit complex, [ec:1.9.3.1] is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIIc. The yeast member of this family is called COX VIII [swissprot:P04039].
Pfam PF08242: Methyltransferase domain (domain)
Members of this family are SAM dependent methyltransferases.
Pfam PF24569: Cilia- and flagella-associated protein 161-like domain (domain)
This domain is found in human Cilia- and flagella-associated protein 161 (CFAP161) and in similar animal proteins. CFAP161 is a microtubule inner protein (MIP) part of the dynein- decorated doublet microtubules (DMTs) in cilia axoneme, that is required for motile cilia beating.
Pfam PF17010: Domain of unknown function (DUF5092) (family)
his is a family of microsporidial-specific sequences of unknown function. There is one transmembrane domain towards the C-terminus.
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 PF14395: Phage phiEco32-like COOH.NH2 ligase-type 2 (family)
A family of COOH-NH2 ligases/GCS superfamily found in the neighborhood of YheC/D-like ATP-grasp and the CotE family of proteins in the firmicutes. Contextual analysis suggests that it might be involved in cell wall modification and spore coat biosynthesis.
Pfam PF18432: Extracellular Cadherin domain (domain)
This is an extracellular cadherin (EC) domain which can be found at the N-terminal region of Protocadherin 15 (Pcdh15). Pcdh15 features exceptionally long extracellular domains containing 11 ECs. These repeats are structurally similar, but not identical in sequence, often featuring linkers with conserved calcium-binding sites that confer mechanical strength to them.
Wikipedia: Cadherins (named for "calcium-dependent adhesion") are cell adhesion molecules important in forming adherens junctions that let cells adhere to each other. Cadherins are a class of type-1 transmembrane proteins, and they depend on calcium (Ca2+) ions to function, hence their name. Cell-cell adhesion is mediated by extracellular cadherin domains, whereas the intracellular cytoplasmic tail associates with numerous adaptors and signaling proteins, collectively referred to as the cadherin adhesome.
Pfam PF11326: Synaptic plasticity regulator PANTS-like (family)
This eukaryotic family of short proteins includes the mouse micropeptide known as Synaptic plasticity regulator PANTS (Plasticity-Associated Neural Transcript Short, C22orf39), which plays a role in synaptic plasticity.
Pfam PF06477: Protein of unknown function (DUF1091) (domain)
This is a family of uncharacterised proteins. Based on its distant similarity to [pfam:PF02221] and conserved pattern of cysteine residues it is possible that these domains are also lipid binding.
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 PF21823: Mucin-like protein 1 (family)
This entry represents the human mucin-like protein 1 and its close homologues. Mucin-like 1 (MUCL1) is a small glycoprotein highly expressed mainly in breast cancer. MUCL1 is a breast specific gene which is highly expressed in breast and salivary glands.
Pfam PF04365: Ribonuclease toxin, BrnT, of type II toxin-antitoxin system (domain)
BrnT is a ribonuclease toxin of a type II toxin-antitoxin system that exhibits a RelE-like fold. The antitoxin that neutralises this toxin is [pfam:PF14384]. BrnT is found in bacteria, archaea, bacteriophage, and plasmids. BrnT-BrnA forms a 2:2 tetrameric complex and autoregulates its own expression, which is induced by a number of different environmental stresses. Expression of BrnT alone results in cessation of bacterial growth which can be rescued after subsequent expression of BrnA.
Wikipedia: A toxin-antitoxin system consists of a "toxin" and a corresponding "antitoxin", usually encoded by closely linked genes. The toxin is usually a protein while the antitoxin can be a protein or an RNA. Toxin-antitoxin systems are widely distributed in prokaryotes, and organisms often have them in multiple copies. When these systems are contained on plasmids – transferable genetic elements – they ensure that only the daughter cells that inherit the plasmid survive after cell division. If the plasmid is absent in a daughter cell, the unstable antitoxin is degraded and the stable toxic protein kills the new cell; this is known as 'post-segregational killing' (PSK).
Pfam PF06216: Rice tungro bacilliform virus P46 protein (family)
This family consists of several Rice tungro bacilliform virus P46 proteins. The function of this family is unknown.
Pfam PF00902: Sec-independent protein translocase protein (TatC) (family)
The bacterial Tat system has a remarkable ability to transport folded proteins even enzyme complexes across the cytoplasmic membrane. It is structurally and mechanistically similar to the Delta pH-driven thylakoidal protein import pathway. A functional Tat system or Delta pH-dependent pathway requires three integral membrane proteins: TatA/Tha4, TatB/Hcf106 and TatC/cpTatC. The TatC protein is essential for the function of both pathways. It might be involved in twin-arginine signal peptide recognition, protein translocation and proton translocation. Sequence analysis predicts that TatC contains six transmembrane helices (TMHs), and experimental data confirmed that N- and C-termini of TatC or cpTatC are exposed to the cytoplasmic or stromal face of the membrane. The cytoplasmic N-terminus and the first cytoplasmic loop region of the Escherichia coli TatC protein are essential for protein export. At least two TatC molecules co-exist within each Tat translocon.
Wikipedia: The twin-arginine translocation pathway is a protein export, or secretion pathway found in plants, bacteria, and archaea. In contrast to the Sec pathway which transports proteins in an unfolded manner, the Tat pathway serves to actively translocate folded proteins across a lipid membrane bilayer. In plants, the Tat translocase is located in the thylakoid membrane of the chloroplast, where it acts to export proteins into the thylakoid lumen. In bacteria, the Tat translocase is found in the cytoplasmic membrane and serves to export proteins to the cell envelope, or to the extracellular space. The existence of a Tat translocase in plant mitochondria is also proposed.
Pfam PF00198: 2-oxoacid dehydrogenases acyltransferase (catalytic domain) (domain)
These proteins contain one to three copies of a lipoyl binding domain followed by the catalytic domain.
Pfam PF00043: Glutathione S-transferase, C-terminal domain (domain)
GST conjugates reduced glutathione to a variety of targets including S-crystallin from squid, the eukaryotic elongation factor 1-gamma, the HSP26 family of stress-related proteins and auxin-regulated proteins in plants.  Stringent starvation proteins in E. coli are also included in the alignment but are not known to have GST activity. The glutathione molecule binds in a cleft between N and C-terminal domains. The catalytically important residues are proposed  to reside in the N-terminal domain. In plants, GSTs are encoded by  a large gene family (48 GST genes in Arabidopsis) and can be divided  into the phi, tau, theta, zeta, and lambda classes.
Wikipedia: Glutathione S-transferases (GSTs), previously known as ligandins, are a family of eukaryotic and prokaryotic phase II metabolic isozymes best known for their ability to catalyze the conjugation of the reduced form of glutathione (GSH) to xenobiotic substrates for the purpose of detoxification. The GST family consists of three superfamilies: the cytosolic, mitochondrial, and microsomal—also known as MAPEG—proteins. Members of the GST superfamily are extremely diverse in amino acid sequence, and a large fraction of the sequences deposited in public databases are of unknown function. The Enzyme Function Initiative (EFI) is using GSTs as a model superfamily to identify new GST functions.
Pfam PF21819: Family of unknown function (DUF6885) (family)
This is a small family of proteins that are likely to adopt a papain-like fold. Most members of this family have conserved residues in equivalent positions as the residues that constitute the active site of cysteine proteases.
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 PF08937: Thoeris protein ThsB, TIR-like domain (domain)
Thoeris is a bacterial antiphage defense system, which consists of two genes, thsA and thsB, via NAD+ degradation. ThsA has robust NAD+ cleavage activity and and a two-domain architecture containing a N-terminal NAD-binding domain (denoted as sirtuin-like or Macro) and C-terminal SLOG-like domain. In some instances, such as in B. amyloliquefaciens ThsA has an N-terminal transmembrane domain. ThsB (also referred to as TIR1 and TIR2) is structurally similar to TIR domain proteins but without enzymatic activity. This is the TIR-like domain of ThsB proteins,  which adopts a Rossmann-like fold. ThsB is responsible for recognizing phage infection.
Pfam PF01764: Lipase (class 3) (domain)
This entry represents a domain with an Î±/Î² hydrolase fold found in a group of proteins from eukaryotes and bacteria, including Feruloyl esterase A from Aspergillus niger , Triacylglycerol lipase OBL1 from Arabidopsis thaliana , human Diacylglycerol lipase-alpha , Toxin TseL from Vibrio cholerae . It is similar to that found in fungal lipases .
Wikipedia: The enzyme triacylglycerol lipase (also triglyceride lipase, EC 3.1.1.3;systematic name triacylglycerol acylhydrolase) catalyses the hydrolysis of ester linkages of triglycerides:triacylglycerol + H2O ⇌ diacylglycerol + a carboxylate
Pfam PF05829: Adenovirus late L2 mu core protein (Protein X) (family)
This family consists of several Adenovirus late L2 mu core protein or Protein X sequences.
Pfam PF19956: Effector-associated domain 2 (domain)
Effector-associated domains (EADs) are predicted to function as adaptor domains mediating protein-protein interactions. The EADs show a characteristic architectural pattern. One copy is always fused, typically to the N- or C-terminus, of a core component of a biological conflict system; examples include VMAP, iSTAND, or GAP1. Further copies of the same EAD are fused to either effector or signal-transducing domains, or additional EADs. EAD pairs are frequently observed together on the genome in conserved gene neighborhoods, but can also be severed from such neighborhoods and located in distant regions, indicating the EAD-EAD coupling approximates the advantages of collinear transcription. Profile-profile searches unify EAD2 with the Death superfamily of domains.
Pfam PF23346: Integral membrane domain of unknown function (DUF7087) (domain)
This entry represents a four helical integral membrane domain found in nematode species. The function of this domain 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 PF05188: MutS domain II (domain)
This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with [pfam:PF00488], [pfam:PF01624], [pfam:PF05192] and [pfam:PF05190]. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair;  other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal  carcinoma (HNPCC) and is a mismatch binding protein.  This domain corresponds to domain II in Thermus aquaticus MutS as characterised in, and has similarity resembles RNAse-H-like domains (see [pfam:PF00075]).
Pfam PF13086: AAA domain (domain)
This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.
Wikipedia: AAA proteins are a large group of protein family sharing a common conserved module of approximately 230 amino acid residues. This is a large, functionally diverse protein family belonging to the AAA+ protein superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent remodeling or translocation of macromolecules.
Pfam PF19828: Family of unknown function (DUF6309) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000078) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the  incednine biosynthetic gene cluster from Streptomyces sp. ML694-90F3.
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 PF05461: Apolipoprotein L (family)
Apo L belongs to the high density lipoprotein family that plays a central role in cholesterol transport. The cholesterol content of membranes is important in cellular processes such as modulating gene transcription and signal transduction both in the adult brain and during neurodevelopment. There are six apo L genes located in close proximity to each other on chromosome 22q12 in humans. 22q12 is a confirmed high-susceptibility locus for schizophrenia and close to the region associated with velocardiofacial syndrome that includes symptoms of schizophrenia.
Wikipedia: Apolipoprotein L is found in high-density lipoprotein complexes that plays a central role in cholesterol transport. The cholesterol content of membranes is important in cellular processes such as modulating gene transcription and signal transduction both in the adult brain and during neurodevelopment. There are six apo L genes located in close proximity to each other on chromosome 22q12 in humans. 22q12 is a confirmed high-susceptibility locus for schizophrenia and close to the region associated with velocardiofacial syndrome that includes symptoms of schizophrenia.
Pfam PF08649: DASH complex subunit Dad1 (family)
The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis. In Saccharomyces cerevisiae DASH forms both rings and spiral structures on microtubules in vitro.  Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules. Throughout the cell cycle Dad1 remains bound to kinetochores throughout the cell cycle and its association is dependent on the Mis6 and Mal2.
Pfam PF15663: Zinc-finger containing family (family)
zf-CCCH_3 family is found in eukaryotes, and is typically between 155 and 169 amino acids in length.
Pfam PF23664: Nucleoporin pom152-like, immunoglobulin-like domain (domain)
This domain is found in Nucleoporin pom152 from Schizosaccharomyces pombe and similar fungal proteins. Pom152 functions as a component of the nuclear pore complex (NPC). This domain is predicted to adopt an immunoglobulin-like structure.
Pfam PF23650: Domain of unknown function (DUF7148) (domain)
This domain is found in uncharacterised plant proteins. It is predicted to fold into an alpha/beta structure that is topologically similar to BRSK1/2 KA1 domain ([pfam:PF21122]).
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.