SII-SWORD/CoKE huggingface dataset:
Pfam PF23056: MEX67-like, NTF2-like domain (domain)
This entry represents a NTF2-like domain of approximately 220 residues long found in a set of uncharacterised kinetoplasts proteins.
Pfam PF24637: DEAH11 RRM domain (domain)
This domain is found in the ATP-dependent RNA helicase DEAH11, DEAH12 from Arabidopsis thaliana and related plant proteins. This domain shares detectable similarity to RNA binding domains and is predicted to adopt an alpha/beta structure with similar topology.
Pfam PF21741: Domain of unknown function (DUF6867) (domain)
This entry represents a likely integral membrane protein. These proteins are composed of three alpha helices followed by a short beta hairpin. This family is called DUF6867. Proteins in this family are found in Proteobacteria.
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 PF25154: AP-5 complex subunit zeta-1, C-terminal TPR repeats (repeat)
This is a region of tetratricopeptide (TPR)-like repeats found at the C-terminal end of human AP-5 complex subunit zeta-1 (AP5Z1, also known as SPG48), which is part of AP-5, a probable fifth adaptor protein complex that may be involved in endosomal transport. This protein has been associated with hereditary spastic paraplegia.
Pfam PF02335: Cytochrome c552 (family)
Cytochrome c552 (cytochrome c nitrite reductase) is a crucial enzyme  in the nitrogen cycle catalysing the reduction of nitrite to ammonia. The crystal structure of cytochrome c552 reveals it to be a dimer, with with 10 close-packed type c haem groups.
Pfam PF20645: Rrn7/TAF1B, C-terminal cyclin domain (domain)
Rrn7 from yeast and its orthologue TATA box-binding protein-associated factor RNA polymerase I subunit B (TAF1B) from human, are TFIIB-like factors components of RNA polymerase I core factor complex. They contain two cyclin fold domains. In Rrn7 the cyclin domains interact with both Rrn6 and Rrn11 and form the fingers of the core factor which resembles a right hand. N-terminal regions of both Rrn11 and Rrn6 compose the palm, the thumb is composed by the C-terminal of Rrn11 and the knuckles consist of the C-terminal half of Rrn6. This is the C-terminal cyclin domain of Rrn7 from yeast and the orthologues from animals and plants TAF1B.
Pfam PF11505: Protein of unknown function (DUF3216) (family)
This family of archaeal proteins with unknown function appears to be restricted ton Thermococcaceae.
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 PF22740: RapZ C-terminal domain (domain)
This entry represents the C-terminal domain of RapZ which belongs to the Rhodanese-Phosphatase superfamily. It has been shown to bind multiple ligands as part of the regulation of glucosamine-6-phosphate (GlcN6P) levels, which is a precursor to the bacterial cell wall polymer peptidoglycan. Assignment to the greater Rhodanese-Phosphatase superfamily has led to the prediction that, as part of this regulation, it functions as a sugar phosphorylation-dephosphorylation switch.
Pfam PF01079: Hint module (domain)
This is an alignment of the Hint module in the Hedgehog proteins. It does not include any Inteins which also possess the Hint module.
Pfam PF21969: Mannosylglycerate synthase, GT domain (domain)
Mannosylglycerate synthase catalyses the formation of the stress protectant 2-O-alpha-D-mannosyl glycerate. It consists of a GT-like domain at the N-terminal and a C-terminal helical domain. This entry represents the N-terminal glycosyltransferase domain (GT) which, at the sequence level, is most similar to family-GT2 inverting GTs, however, MGS is a retaining GT.
Pfam PF15985: KH domain (domain)
KH motifs bind RNA in vitro. Auto-antibodies to Nova, a KH domain protein, cause para-neoplastic opsoclonus ataxia.
Wikipedia: The K Homology (KH) domain is a protein domain that was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. An evolutionarily conserved sequence of around 70 amino acids, the KH domain is present in a wide variety of nucleic acid-binding proteins. The KH domain binds RNA, and can function in RNA recognition. It is found in multiple copies in several proteins, where they can function cooperatively or independently. For example, in the AU-rich element RNA-binding protein KSRP, which has 4 KH domains, KH domains 3 and 4 behave as independent binding modules to interact with different regions of the AU-rich RNA targets. The solution structure of the first KH domain of FMR1 and of the C-terminal KH domain of hnRNP K determined by nuclear magnetic resonance (NMR) revealed a beta-alpha-alpha-beta-beta-alpha structure. Autoantibodies to NOVA1, a KH domain protein, cause paraneoplastic opsoclonus ataxia. The KH domain is found at the N-terminus of the ribosomal protein S3. This domain is unusual in that it has a different fold compared to the normal KH domain.
Pfam PF17443: Uncharacterized protein pXO2-72 (family)
This is a family of unknown function found in Bacilli.
Pfam PF02646: RmuC family (family)
This family contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures
Pfam PF09652: Putative CRISPR-associated protein (Cas_VVA1548) (domain)
This entry represents a conserved region of about 95 amino acids found exclusively in species with CRISPRs (Clustered Regularly Interspaced Short Palindromic Repeats). In all bacterial species that contain this entry, the genes encoding the proteins are in the midst of a cluster of cas (CRISPR-associated) genes.
Pfam PF11211: Protein of unknown function (DUF2997) (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 PF04791: LMBR1-like membrane protein (family)
Members of this family are integral membrane proteins that are around 500 residues in length. LMBR1 is not involved in preaxial polydactyly, as originally thought. Vertebrate members of this family may play a role in limb development. Lysosomal cobalamin transport escort protein LMBD1 is a lysosomal membrane chaperone required to export cobalamin from lysosome to the cytosol, allowing its conversion to cofactors. A member of this family has been shown to be a lipocalin membrane receptor.
Pfam PF21496: Microneme protein MIC5 (domain)
Microneme protein MIC5 is found in Apicomplexa and expressed as a preproprotein which is proteolytically processed to a proprotein by the signal peptidase before being further processed in a post-Golgi compartment to the mature protein. The structure of MIC5 was determined in Toxoplasma gondii and it revealed that it is a subtilisin propeptide mimic and a potent inhibitor of TgSUB1. Tis protein adopts a subtilisin-like prodomain structure, which consists of an open-sandwich antiparallel-alpha/antiparallel-beta fold.
Pfam PF18447: Fibronectin type III domain (domain)
This domain is found in Interleukin-7 receptor subunit alpha (IL-7Ralpha), which together IL-7 form a complex crucial to several signalling cascades leading to the development and homeostasis of T and B cells. IL-7Ralpha carries a 219 residue ectodomain on the N-terminal region which is crucial for T and B-cell development. Mutations in the IL-7Ralpha ectodomain inhibits T and B cell development, resulting in patients with a form of severe combined immunodeficiency (SCID). The ectodomain folds into two fibronectin type III (FNIII) domains connected by a 310-helical linker. This entry comprises the first of the two FNIII domains, D1 while D2 domain is [pfam:PF00041]. In the D1 domain of IL-7Ralpha, a disulfide bond (C22R-C37R) conserved among cytokine receptor class I (CRH I) family members bridges two beta strands.
Pfam PF15494: Scavenger receptor cysteine-rich domain (domain)
SRCR_2 is a scavenger receptor cysteine-rich domain family found largely on vertebrate sequences up-stream of the trypsin-like transmembrane serine protease, Spinesin.
Pfam PF21466: Endo-alpha-N-acetylgalactosaminidase, domain 5 (domain)
Endo-alpha-N-acetylgalactosaminidase is a member of glycoside hydrolase (GH) family 101 and hydrolases the O-glycosidic bonds in mucin-type O-glycan between alpha-GalNAc and Ser/Thr. It is a multidomain protein. It contains a distorted (alpha/beta)8 barrel catalytic domain (referred to as domain 3) flanked by four additional domains, which are mainly made of beta-sheets (domains 2, 4, 5 and 6). This entry represents domain 5 which is part of the carbohydrate binding module.
Pfam PF22080: Dark, CARD domain (domain)
This entry represents a caspase recruitment domain (CARD) present in a set of Dark (Drosophila Apaf-1-related killer) proteins in arthropods. Dark protein is part of the apoptosome complex and plays a key role in procaspases activation and apoptosis. This N-terminal CARD in Dark belongs to the alpha-helical Death Domain superfamily and interacts with the N-terminal CARD of Dronc protein.
Pfam PF14287: Domain of unknown function (DUF4368) (family)
This domain family is found in bacteria, and is approximately 70 amino acids in length. The family is found in association with [pfam:PF00239] and [pfam:PF07508]. There is a single completely conserved residue G 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 PF04324: BFD-like [2Fe-2S] binding domain (domain)
The two Fe ions are each coordinated by two conserved cysteine residues. This domain occurs alone in small proteins such as Bacterioferritin-associated ferredoxin (BFD, [swissprot:P13655]). The function of BFD is not known, but it may may be a general redox and/or regulatory component involved in the iron storage or mobilisation functions of bacterioferritin in bacteria. This domain is also found in nitrate reductase proteins in association with Nitrite and sulphite reductase 4Fe-4S domain ([pfam:PF01077]), Nitrite/Sulfite reductase ferredoxin-like half domain ([pfam:PF03460]) and Pyridine nucleotide-disulphide oxidoreductase ([pfam:PF00070]). It is also found in NifU nitrogen fixation proteins, in association with NifU-like N terminal domain ([pfam:PF01592]) and NifU-like domain ([pfam:PF01106]).
Pfam PF19813: Family of unknown function (DUF6296) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000187) is described by MIBiG as an example of the following biosynthetic class, polyketide, in particular the asukamycin biosynthetic gene cluster from Streptomyces nodosus  subsp. asukaensis. This family appears to be predominantly  found in 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 PF24030: Domain of unknown function (DUF7341) (domain)
This entry represents the N-terminal domain of an uncharacterised family of phage 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 PF16300: Type of WD40 repeat (repeat)
Most members of this family form part of the 7-bladed beta-propeller at the N-terminus of coronin proteins.
Wikipedia: The WD40 repeat is a short structural motif of approximately 40 amino acids, often terminating in a tryptophan-aspartic acid (W-D) dipeptide. Tandem copies of these repeats typically fold together to form a type of circular solenoid protein domain called the WD40 domain.
Pfam PF04011: LemA family (family)
The members of this family are related to the LemA protein [swissprot:P71452]. LemA contains an amino terminal predicted transmembrane helix. It has been predicted that the small amino terminus is extracellular. The exact molecular  function of this protein is uncertain.
Pfam PF02977: Carboxypeptidase A inhibitor (domain)
In molecular biology, the carboxypeptidase A inhibitor family is a family of proteins which is represented by the well-characterised metallocarboxypeptidase A inhibitor (MCPI) from potatoes, which belongs to the MEROPS inhibitor family I37, clan IE. It inhibits metallopeptidases belonging to MEROPS peptidase family M14, carboxypeptidase A.

Proteins with this domain include metallocarboxypeptidase inhibitor (MCPI) and fruit-specific protein. MCPI may play a defensive role against insect attacks .
Wikipedia: In molecular biology, the carboxypeptidase A inhibitor family is a family of proteins which is represented by the well-characterised metallocarboxypeptidase A inhibitor (MCPI) from potatoes, which belongs to the MEROPS inhibitor family I37, clan IE. It inhibits metallopeptidases belonging to MEROPS peptidase family M14, carboxypeptidase A. In Russet Burbank potatoes, it is a mixture of approximately equal amounts of two polypeptide chains containing 38 or 39 amino acid residues. The chains differ in their amino terminal sequence only and are resistant to fragmentation by proteases. The structure of the complex between bovine carboxypeptidase A and the 39-amino-acid carboxypeptidase A inhibitor from potatoes has been determined at 2.5-Angstrom resolution.
Pfam PF18897: Recombination directionality factor-like (family)
This entry includes Gp3 from Streptomyces phage phiC31. Gp3 is a recombination directionality factor that interacts directly with the integrase tetramer to activate excision and inhibit integration. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Pfam PF11395: Betacoronavirus NS7B protein (family)
This entry corresponds to Human SARS coronavirus (SARS-CoV) and similar betacoronaviruses  NS7B protein (also known as accessory protein 7b, NS7B, ORF7b and 7b). It was found to be a structural component of SARS-CoV virions and an integral membrane protein. Its transmembrane domain is essential for Golgi compartment localization.
Pfam PF14346: Domain of unknown function (DUF4398) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 127 and 269 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 PF18141: RNA helicase UPF1, 1B domain (domain)
UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. Together with UPF2 and UPF3, forms a surveillance complex, in which UPF2 acts as a bridge between UPF1 and UPF3. UPF2 and UPF3 are non-enzymatic components of the complex that stimulate the activity of UPF1. UPF1 has a N-terminal cysteine/histidine-rich zinc-binding domain (CH/ZBD), a regulatory 1B domain, followed by a helicase core that belongs to superfamily 1 (SF1). This entry represents 1B domain of UPF1 which has a regulatory role. It suffers conformational changes from an inhibitory state to a transition-state complex that modulate RNA binding.
Pfam PF21002: Transmembrane protein 106 N-terminal region (family)
This family includes Transmembrane protein 106A/B/C, type II transmembrane proteins which have homology to the late embryogenesis abundant-2 (LEA-2) domain. TMEM106A has been identified as a key factor to regulate macrophage activation and a tumour suppressor in gastric, renal cancer and non small-cell lung carcinoma (NSCLC). TMEM106B localises to late endosomes and lysosomes, and it is involved in dendrite morphogenesis and maintenance by regulating lysosomal trafficking via its interaction with MAP6. Its overexpression is associated with familial frontotemporal lobar degeneration. It has also been identified as a protein required for productive SARS-CoV-2. Structural analysis of LEA-2 domains revealed that they have a long, conserved lipid-binding groove, implying that TMEM106B and its homologues Vac7 and Tag1 from yeast, may all be lipid transfer  proteins in the lumen of late endocytic organelles.
Pfam PF04235: Protein of unknown function (DUF418) (family)
Probable integral membrane protein.
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 PF17302: Family of unknown function (DUF5351) (family)
This family of unknown function is found in Bacillales.
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 PF20311: Family of unknown function (DUF6607) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in primarily found in Bacteroidetes and proteobacteria. Proteins in this family are typically between 300 and 331 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 PF03628: PapG chaperone-binding domain (domain)
PapG, the adhesin of the P-pili, is situated at the tip and  is only a minor component of the whole pilus structure.  A two-domain structure has been postulated for PapG; a carbohydrate  binding N-terminus and chaperone binding C-terminus (this domain). The chaperone-binding domain is highly conserved, and is essential  for the correct assembly of the pili structure when aided by the  chaperone molecule PapD.
Pfam PF12311: Protein of unknown function (DUF3632) (family)
This domain family is found in eukaryotes, and is approximately 170 amino acids in length. There is a conserved ALE sequence motif.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF18274: Vacuolar ATPase Subunit I N-terminal proximal lobe (domain)
This domain is found in the cytoplasmic N-terminal domain of vacuolar ATP synthase subunit I present in Meiothermus ruber. Subunit I is a homolog of subunit A which associates with the membrane-bound complex of eukaryotic vacuolar H+-ATPase (V-ATPase) acidification machinery. The domain forms the proximal lobe that caps one end of the alpha helix bundle, with the distal lobe capping the other end. Although the two lobes exhibit a similar motif, the molecular nature of the coupling with the identical stalks is thought to be dissimilar.
Wikipedia: Vacuolar-type ATPase (V-ATPase) is a highly conserved evolutionarily ancient enzyme with remarkably diverse functions in eukaryotic organisms. V-ATPases acidify a wide array of intracellular organelles and pumps protons across the plasma membranes of numerous cell types. V-ATPases couple the energy of ATP hydrolysis to proton transport across intracellular and plasma membranes of eukaryotic cells. It is generally seen as the polar opposite of ATP synthase because ATP synthase is a proton channel that uses the energy from a proton gradient to produce ATP. V-ATPase however, is a proton pump that uses the energy from ATP hydrolysis to produce a proton gradient.
Pfam PF21494: Protein kinase C delta/epsilon/eta/theta, C2 domain (domain)
Protein kinases C are serine- and threonine-specific protein kinases that depend on lipids for activity and play key regulatory roles in various cellular processes. This entry represents the C2 domain found at the N-terminal of protein kinase C delta/epsilon/eta/tetha which are classified as novel PKCs. This domain plays a regulatory role and, in members of this entry, does not respond to calcium which makes nPKC diacylglycerol sensitive but calcium-independent.
Pfam PF00427: Phycobilisome Linker polypeptide (family)
Phycobilisomes (PBSs) are the major light-harvesting systems in cyanobacteria and red algae. PBS is a supercomplex that is composed of a core complex and multiple peripheral rod complexes. Typically, the core consists of two or five cylinders lying on the membrane with, in most cases, multiple rods radiating from the core to form a hemidiscoidal structure. The building units of the core cylinders and the peripheral rods are trimeric and hexameric discs, in which a monomer consists of a pair of related phycobiliproteins (PBPs), such as phycorerythrins, phycoerythrocyanins, phycocyanins, and allophycocyanins. The discs are connected to each other via specific linker polypeptides to form peripheral rods or core cylinders. Linker polypeptides share a conserved domain of ~180 residues, which can be present in one or multiple copies .