SII-SWORD/CoKE huggingface dataset:
Pfam PF13456: Reverse transcriptase-like (domain)
This domain is found in plants and appears to be part of a retrotransposon.
Pfam PF12746: GNAT acetyltransferase (family)
Many of the members are annotated s being Zwittermicin A resistance proteins, whereas others are listed as being GNAT acetyltransferases.  The family has similarities to the GNAT acetyltransferase family.
Pfam PF07919: Gryzun, putative trafficking through Golgi (family)
The proteins featured in this family are all eukaryotic, and many of them are annotated as being Gryzun. Gryzun is distantly related to, but distinct from, the Trs130 subunit of the TRAPP complex but is absent from S. cerevisiae. RNAi of human Gryzun ([swissprot:Q7Z392]) blocks Golgi exit. Thus the family is likely to be involved with trafficking of proteins through membranes, perhaps as part of the TRAPP complex.
Pfam PF10443: RNA12 protein (family)
This family includes RNA12 from S. cerevisiae.  That protein contains an RRM domain.  This region is C-terminal to that and includes a P-loop motif suggesting this region binds to NTP. The RNA12 proteins is involved in pre-rRNA maturation.
Pfam PF08961: Nuclear receptor-binding factor 2, autophagy regulator (domain)
NRBF2 plays an essential role in autophagy, the cellular pathway that degrades long-lived proteins and other cytoplasmic contents through lysosomes.  NRBF2 binds Atg14L - a Beclin-binding protein - directly via the MIT domain and enhances Atg14L-linked Vps34 kinase (a class III phosphatidylinositol-3 kinase) activity and autophagy induction.
Pfam PF23240: PRP39 N-terminal HAT repeat (repeat)
This entry includes HAT (Half A TPR) repeat proteins including Pre-mRNA-processing factor 39, SART3, PRP42 and similar proteins. PRP39 is a component of the spliceosome that functions prior to stable branch point recognition by the U1 snRNP particle to facilitate or stabilize the U1 snRNP/5'-splice site interaction and has a direct role in spliceosome assembly. PRP42 from yeast is an essential component of the U1 snRNP particle, which recognises and binds the 5'-splice site of pre-mRNA. This entry represents the N-terminal segment of the HAT repeats.
Pfam PF08839: DNA replication factor CDT1 like (domain)
CDT1 is a component of the replication licensing system and promotes the loading of the mini-chromosome maintenance complex onto chromatin.  Geminin is an inhibitor of CDT1 and prevents inappropriate re-initiation of replication on an already fired origin.  This region of CDT1 binds to Geminin.
Pfam PF17824: Family of unknown function (DUF5586) (family)
This is a family of unknown function found in chordata.
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 PF16429: Domain of unknown function (DUF5026) (family)
This family consists of several uncharacterized proteins around 100 residues in length and is mainly found in various Clostridiales species. The function of this family 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 PF23223: Zinc finger protein 462, C2H2 zinc finger (domain)
This domain is found in the human Zinc finger protein 462 and related proteins. This protein is involved in transcription by regulating chromatin structure and organisation. ZNF462 is a multidomain protein that contains a number of classical C2H2 zinc fingers. This entry represents one of them.
Pfam PF05643: Putative lipoprotein GNA1162-like (family)
This family of putative lipoproteins mainly found in Proteobacteria includes GNA1162 from Neisseria meningitidis, which shows five alpha-helices and four beta-strands, three of them forming a beta-sheet.
Pfam PF18031: Ubiquitin carboxyl-terminal hydrolases (domain)
This is the C-terminal domain found in eukaryotic UCH37 proteins (also known as Ubiquitin carboxyl-terminal hydrolase isozyme L5, UCHL5). UCH37 is a subunit of two complexes: INO80, which performs ATP-dependent sliding of nucleosomes for transcriptional regulation and DNA repair, and the 26S proteasome, which performs ATP-dependent proteolysis of polyubiquitylated proteins in the cytosol and nucleus. Recruitment to the proteasome is mediated by the C-terminal domain of RPN13 (also known as ADRM1). Recruitment to INO80 is mediated by the N-terminal domain of NFRKB. Structural and biochemical analysis reveal that RPN13 and NFRKB make similar interactions with the UCH37 C-terminal domain but have very different interactions with the catalytic UCH domain that are activating in the case of RPN13 and highly inhibitory in the case of NFRKB.
Pfam PF05660: Coxiella burnetii protein of unknown function (DUF807) (family)
This family consists of several proteins of unknown function from Coxiella burnetii (the causative agent of a zoonotic disease called Q fever).
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 PF05193: Peptidase M16 inactive domain (domain)
Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp.
Wikipedia: The coenzyme Q : cytochrome c – oxidoreductase, sometimes called the cytochrome bc1 complex, and at other times complex III, is the third complex in the electron transport chain, playing a critical role in biochemical generation of ATP. Complex III is a multisubunit transmembrane protein encoded by both the mitochondrial and the nuclear genomes. Complex III is present in the mitochondria of all animals and all aerobic eukaryotes and the inner membranes of most bacteria. Mutations in Complex III cause exercise intolerance as well as multisystem disorders. The bc1 complex contains 11 subunits, 3 respiratory subunits, 2 core proteins and 6 low-molecular weight proteins.
Pfam PF13827: Domain of unknown function (DUF4189) (family)
This domain of unknown function contains six well-conserved cysteine 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 PF12139: Adenosine-5'-phosphosulfate reductase beta subunit (family)
This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 112 to 142 amino acids in length. This family is found in association with [pfam:PF00037], and has a conserved FPIRTT sequence motif. The whole beta subunit has the enzymic properties of [ec:1.8.99.2].
Pfam PF11095: Gem-associated protein 7 (Gemin7) (family)
Gemin7 is a novel component of the survival of motor neuron complex which functions in the assembly of spliceosomal small nuclear ribonucleoproteins. Gemin7 interacts with several Sm proteins of spliceosomal small nuclear ribonucleoproteins, especially SmE.
Pfam PF02423: Ornithine cyclodeaminase/mu-crystallin family (family)
This family contains the bacterial Ornithine cyclodeaminase enzyme [ec:4.3.1.12], which catalyses the deamination of ornithine to proline. This family also contains mu-Crystallin the major component of the eye lens in several Australian marsupials, mRNA for this protein has also been found in human retina.
Pfam PF10627: Curli assembly protein CsgE (family)
Curli are a class highly aggregated surface fibres that are part of a complex extracellular matrix.  They promote biofilm formation in addition to other activities.  CsgE is a non-structural protein involved in curli biogenesis. CsgE forms an outer membrane complex with the curli assembly proteins CsgG and CsgF.
Pfam PF10688: Bacterial inner membrane protein (family)
This is a family of inner membrane proteins. Many of the members are YgjV protein.
Pfam PF16563: Coiled-coil and interaction region of P66A and P66B with MBD2 (coiled_coil)
This family is a short coiled-coil interaction region on the transcriptional repressors P66A and P66B. The P66A and B, or alpha and beta, complex with MBDs or methyl-binding domain-containing proteins via a coiled-coil region on each. This P66-MBD2 complex forms part of an assembly with NuRD, nucleosome remodelling and deacetylation protein.  MBD2-NuRD binds methylated DNA and regulates transcription of eg, the foetal beta-globin gene during development.
Pfam PF01215: Cytochrome c oxidase subunit Vb (domain)
Cytochrome c oxidase (7.1.1.9) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen . In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane.

In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion . Two of these cysteines are clustered in the C-terminal section of the subunit.
Wikipedia: Cytochrome c oxidase subunit 5B, mitochondrial is an enzyme in humans that is a subunit of the cytochrome c oxidase complex, also known as Complex IV, the last enzyme in the mitochondrial electron transport chain. In humans, cytochrome c oxidase subunit 5B is encoded by the COX5B gene.
Pfam PF01320: Colicin immunity protein / pyocin immunity protein (domain)
This family includes bacterial colicin and pyocin immunity proteins . These immunity proteins can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity. The 1.8-angstrom crystal structure of the ImmE7 protein consists of four antiparallel Î±-helices . Sequence similarities between colicins E2, A and E1  are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13  immunity proteins. Pyocin protects a cell that harbours the plasmid ColE2 encoding colicin E2 against colicin E2; it is thus essential both for autonomous replication and colicin E2 immunity .
Pfam PF06396: Angiotensin II, type I receptor-associated protein (AGTRAP) (family)
This family consists of several angiotensin II, type I receptor-associated protein (AGTRAP) sequences. AGTRAP is known to interact specifically with the carboxyl-terminal cytoplasmic region of the angiotensin II type 1 (AT(1)) receptor to regulate different aspects of AT(1) receptor physiology. The function of this family is unclear.
Pfam PF22917: PRISE-like Rossmann-fold domain (domain)
This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.
Pfam PF11085: Conserved membrane protein YqhR (family)
This family is conserved in the Bacillaceae family of the Firmicutes. The function is not known.
Pfam PF20300: Prokaryotic STING domain (family)
This is a STING sensor domain found in certain prokaryotic nucleotide-activated effector conflict systems. Binding to a nucleotide activates fused effector proteins in conflict response against invasive elements. Certain versions in prokaryotes may additionally regulate bacterial ion channels. Transferred to eukaryotes on multiple occasions, representatives observed are in animal-choanoflagellate, haptophyte/stramenopile, and fungal lineages.
Pfam PF18001: Interleukin-13 receptor subunit alpha Ig-like domain (domain)
This is the N-terminal Ig-like domain found in IL-13Ralpha1 type two cytokine complex. The IL-13Ralpha1 contains an extra N-terminal Ig-like domain not found in other receptors of the the common gamma-chain subfamily. The extra N-terminal IL-13Ralpha1 Ig-like domain contacts the dorsal surfaces of both IL-4 and IL-13. Mutational studies show that the deletion of this domain affects the binding of IL-13 to IL-13Ralpha1.
Pfam PF22081: SwaI restriction endonuclease (domain)
SwaI is a Type IIP restriction endonuclease that recognizes a palindromic eight base pair symmetric sequence, 5'-ATTTAAAT-3', and cleaves this target sequence at its center to generate blunt-ended DNA fragments. SwaI forms a dimeric alpha/beta structure with each subunit having a central credle-like mixed beta-sheet with two helices packed on its concave side and a C-terminal helix contributing to the dimer interface. SwaI has a significant similarity to other restriction endonucleases such as HincII, NlaIV, HindIII, EcoRV and others.
Pfam PF23191: MCM3-like, winged helix domain (domain)
This small C-terminal winged helix (WH) domain is found in human DNA replication licensing factor MCM3 and similar eukaryotic sequences. MCM3 is a minichromosome maintenance (MCM) protein, a component of the MCM2-7 complex (MCM complex) which is the replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the MCM2-7 ring are formed through the interaction surfaces of two neighbouring subunits.
Pfam PF02326: Plant ATP synthase F0 (family)
This family corresponds to subunit 8 (YMF19) of the F0 complex of plant and algae mitochondrial F-ATPases ([ec:3.6.1.34]).
Wikipedia: MT-ATP8 is a mitochondrial gene with the full name 'mitochondrially encoded ATP synthase membrane subunit 8' that encodes a subunit of mitochondrial ATP synthase, ATP synthase Fo subunit 8. This subunit belongs to the Fo complex of the large, transmembrane F-type ATP synthase. This enzyme, which is also known as complex V, is responsible for the final step of oxidative phosphorylation in the electron transport chain. Specifically, one segment of ATP synthase allows positively charged ions, called protons, to flow across a specialized membrane inside mitochondria. Another segment of the enzyme uses the energy created by this proton flow to convert a molecule called adenosine diphosphate (ADP) to ATP. Subunit 8 differs in sequence between Metazoa, plants and Fungi.
Pfam PF04348: LppC putative lipoprotein (family)
This family includes several bacterial outer membrane antigens, whose molecular function is unknown.
Pfam PF12081: GldM N-terminal domain (domain)
This domain is found in bacteria at the N-terminus of the GldM protein. This domain is typically between 169 to 182 amino acids in length. This domain has two completely conserved residues (Y and N) that may be functionally important. GldM, is named for the member from Cytophaga johnsonae (Flavobacterium johnsoniae), which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes.
Pfam PF09836: Putative DNA-binding domain (family)
This family represents the N-terminal part of a Neisseria protein, UniProtKB:Q5F5I0, PDB:3dee. It runs from residues 31-117 as a helical bundle with 4 main helices. \From genomic context and the fold of the C-terminal part, it is suggested that this protein is involved in transcriptional regulation.
Pfam PF24987: EF3 N-terminal HEAT repeat (repeat)
This entry represents the first five HEAT repeats found at the N-terminal of elongation factor 3 (EF3) from yeast, which is followed by a block of three HEAT repeats ([pfam:PF24984]). EF3 is a ribosome-dependent ATPase that functions in cytoplasmic translation elongation. It is required for the ATP-dependent release of deacylated tRNA from the ribosomal E-site during protein biosynthesis. This block is also found twice in the central region of the stalled ribosome sensor GCN1, a ribosome collision sensor that plays a key role in the RNF14-RNF25 translation quality control pathway, a pathway that takes place when a ribosome has stalled during translation, and which promotes ubiquitination and degradation of translation factors on stalled ribosomes. This entry also includes NEW1 from S. cerevisiae, a translation termination and ribosome biogenesis factor. It is an ATP-binding cassette protein that cosediments with polysomes and is required for biogenesis of the small ribosomal subunit.
Pfam PF11893: Domain of unknown function (DUF3413) (family)
This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is about 250 amino acids in length. This domain is found associated with [pfam:PF00884].
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 PF16472: Domain of unknown function (DUF5050) (repeat)
This is a Î²-propeller domain found in Prolow-density lipoprotein receptor-related protein 1 (LRP1) from human, an endocytic receptor involved in endocytosis and in phagocytosis of apoptotic cells . LRP1 is involved in cellular lipid homeostasis and in the plasma clearance of chylomicron remnants and activated LRPAP1 (alpha 2-macroglobulin), as well as the local metabolism of complexes between plasminogen activators and their endogenous inhibitors. It acts as an LRPAP1 alpha-2-macroglobulin receptor .
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 PF09725: Folate-sensitive fragile site protein Fra10Ac1 (family)
This entry represents the full-length proteins in which, in higher eukaryotes, the nested domain EDSLL lies. Fra10Ac1 is a highly conserved protein, of unknown function that is nuclear and highly expressed in brain.
Pfam PF13709: Domain of unknown function (DUF4159) (domain)
Members of this family are hypothetical 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 PF03660: PHF5-like protein (family)
This family of proteins the superfamily of PHD-finger proteins. At least one example, from mouse,  may act as a chromatin-associated protein. The S. pombe ini1 gene is essential, required for splicing. It is localised in the nucleus, but not detected in the nucleolus and can be complemented by human ini1.
Pfam PF08460: Bacterial SH3 domain (domain)
SH3 domains are widespread among metazoan intracellular signalling proteins and typically bind proline-rich polypeptides. This SH3 domain is a prokaryotic homologue. It might have two possible functions: (1) promoting survival of a pathogen within the invaded cell by modulating pathways controlled by SH3 domains; or (2) promoting invasion by binding to receptors on eukaryotic cells .
SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues . They are found in a great variety of intracellular or membrane-associated proteins  for example, in a variety of proteins with enzymatic activity, in adaptor proteins, such as fodrin and yeast actin binding protein ABP-1.

The SH3 domain has a characteristic fold which consists of five or six Î²-strands arranged as two tightly packed anti-parallel Î²-sheets. The linker regions may contain short helices. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes .
Pfam PF06497: Baculovirus Ac102 (family)
This family of baculovirus proteins is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV) Ac102. Nuclear actin is critical for AcMNPV progeny production, and Ac102 plays an essential role in actin translocation to the nucleus. It plays a role in regulating nuclear actin polymerisation as well as the morphogenesis and spatial distribution of viral capsid structures in the host nucleus.
Pfam PF04095: Nicotinate phosphoribosyltransferase (NAPRTase) family (family)
Nicotinate phosphoribosyltransferase ([ec:2.4.2.11]) is the rate limiting enzyme that catalyses the first reaction in  the NAD salvage synthesis. This family also includes Pre-B cell enhancing factor that is a cytokine [swissprot:P43490]. This family is related to Quinolinate phosphoribosyltransferase [pfam:PF01729].
Pfam PF06363: Picornaviridae P3A protein (family)
This family consists of the P3A protein of  picornaviridae. P3A has been identified as a genome-linked protein (VPg) and is involved in replication ().
Pfam PF14219: Domain of unknown function (DUF4328) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 218 and 342 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 PF11756: Nitrous oxide-stimulated promoter (family)
The function of ygaB is not known but it is a promoter that is stimulated by the presence of nitrous oxide. It is regulated by the gene-product of the bacterial nsrR gene.