SII-SWORD/CoKE huggingface dataset:
Pfam PF00462: Glutaredoxin (domain)
This entry represents Glutaredoxin.
Glutaredoxins , also known as thioltransferases (disulphide reductases), are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system .

Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin (TRX), which functions in a similar way, glutaredoxin possesses an active centre disulphide bond . It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH ->GSH reductase ->GSH ->GRX ->protein substrates . By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress.

Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed  that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro.
Wikipedia: Glutaredoxins are small redox enzymes of approximately one hundred amino-acid residues that use glutathione as a cofactor. In humans this oxidation repair enzyme is also known to participate in many cellular functions, including redox signaling and regulation of glucose metabolism. Glutaredoxins are oxidized by substrates, and reduced non-enzymatically by glutathione. In contrast to thioredoxins, which are reduced by thioredoxin reductase, no oxidoreductase exists that specifically reduces glutaredoxins. Instead, glutaredoxins are reduced by the oxidation of glutathione. Reduced glutathione is then regenerated by glutathione reductase. Together these components compose the glutathione system.
Pfam PF06484: Teneurin Intracellular Region (family)
This family is found in the intracellular N-terminal region of the Teneurin family of proteins. These proteins are 'pair-rule' genes and are involved in tissue patterning, specifically probably neural patterning. The intracellular domain is cleaved in response to homophilic interaction of the extracellular domain, and translocates to the nucleus. Here it probably carries out to some transcriptional  regulatory activity (). The length of this region and  the conservation suggests that there may be two structural domains here (personal obs:C Yeats).
Wikipedia: Teneurins are a family of phylogenetically conserved single-pass transmembrane glycoproteins expressed during pattern formation and morphogenesis. The name refers to "ten-a" and "neurons", the primary site of teneurin expression. Ten-m refers to tenascin-like protein major.
Pfam PF12792: CSS motif domain associated with EAL (domain)
This domain, with its characteristic highly conserved CSS sequence motif, is found N-terminal to the EAL ([pfam:PF00563]) domain in many cyclic diguanylate phosphodiesterases, such as PdeB/C/D/G/N from E. coli K-12. It has two highly conserved cysteine residues with potential disulfide bond formation, which might control the enzymatic activity of the cytoplasmic C-terminal EAL domain.
Pfam PF14527: WhiA LAGLIDADG-like domain (domain)
This domain is found within the sporulation regulator WhiA.  It is a LAGLIDADG superfamily like domain.
Pfam PF15771: Interactor of HORMAD1 protein 1 (family)
Interactor of HORMAD1 protein 1 (IHO1, previously known as coiled-coil domain-containing protein 36 or DUF4700) is required for DNA double-strand breaks (DSBs) formation in unsynapsed regions during meiotic recombination. It is thought to function, in collaboration with SPO11-auxiliary proteins MEI4 and REC114, through the formation of DSB-promoting recombinosomes on chromatin at the onset of meiosis.
Pfam PF06078: Bacterial protein of unknown function (DUF937) (family)
This family consists of several hypothetical bacterial proteins of unknown 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 PF19015: Family of unknown function (DUF5744) (family)
This is a highly conserved domain found in various Platyhelminthes. Its function is currently 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 PF13750: Bacterial Ig-like domain (group 3) (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 PF00467: KOW motif (family)
This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.
Pfam PF04336: Acyl carrier protein phosphodiesterase (domain)
YajB, now renamed acpH, encodes an ACP hydrolase that converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP.
Pfam PF04135: Nucleolar RNA-binding protein, Nop10p family (family)
Nop10p is a nucleolar protein that is specifically associated with  H/ACA snoRNAs.  It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA  snoRNAs (H/ACA snoRNPs).  Nop10p is probably necessary for the stability of these RNPs.
Pfam PF00868: Transglutaminase family (domain)
Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase.
Wikipedia: Transglutaminases are enzymes that in nature primarily catalyze the formation of an isopeptide bond between γ-carboxamide groups ( -(C=O)NH2 ) of glutamine residue side chains and the ε-amino groups ( -NH2 ) of lysine residue side chains with subsequent release of ammonia ( NH3 ). Lysine and glutamine residues must be bound to a peptide or a protein so that this cross-linking (between separate molecules) or intramolecular (within the same molecule) reaction can happen. Bonds formed by transglutaminase exhibit high resistance to proteolytic degradation (proteolysis). The reaction isGln-(C=O)NH2 + NH2-Lys → Gln-(C=O)NH-Lys + NH3
Pfam PF08859: DGC domain (domain)
This domain appears to be a zinc binding domain from the conservation of four potential chelating cysteines. The domain is named after a conserved central motif. The function of this domain is unknown.
Pfam PF07717: Oligonucleotide/oligosaccharide-binding (OB)-fold (domain)
This family is found towards the C-terminus of the DEAD-box helicases ([pfam:PF00270]). In these helicases it is apparently always found in association with [pfam:PF04408]. There do seem to be a couple of instances where it occurs by itself - e.g. [swissprot:Q84VZ2]. The structure PDB:3i4u adopts an OB-fold. helicases ([pfam:PF00270]). In these helicases it is apparently always found in association with [pfam:PF04408]. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.
Pfam PF05738: Cna protein B-type domain (domain)
This domain is found in Staphylococcus aureus collagen-binding surface protein.  The structure of the repetitive B-region has been solved and forms a beta sandwich structure.
Pfam PF17174: Domain of unknown function (DUF5130) (family)
This entry represents a family of uncharacterised proteins from Actinobacteria, including MSMEG_4692/MSMEI_4575 from Mycolicibacterium smegmatis (A0R1B5), part of a respiratory supercomplex .
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 PF22311: Domain of unknown function (DUF6970) (domain)
This domain is found in uncharacterised proteins from bacteria and protostome animals. It is predicted to fold into a curved meander beta-sheet. It contains four highly conserved cysteine residues, two of which are predicted to cluster together in space and are likely involved in disulfide bond formation.
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 PF22757: Glabrous-enhancer-binding protein-like family, C-terminal domain (domain)
This entry represents the C-terminal domain present in GLABROUS1 enhancer-binding protein (GeBP) and GeBP-like proteins, such us storekeeper and storekeeper-like (STKL) transcription factors. GeBP and GeBP-like proteins play a redundant role in cytokinin hormone pathway regulation. Storekeeper was identified as a B-box motif binding factor that regulates expression of patatin, a storage protein in potato. Storekeeper-like transcription factors STKL1 and STKL2 function as transcription factors in the glucose signalling pathway.
Pfam PF08861: Domain of unknown function DUF1828 (domain)
This presumed domain is functionally uncharacterised.
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 PF24467: FBXO47, ARM repeats (repeat)
This is the C-terminal region of human F-box only protein 47 (FBXO47) and similar animal sequences. This region is predicted to consist of armadillo (ARM)-like repeats.
Pfam PF10850: Protein of unknown function (DUF2653) (family)
This family of proteins with unknown function appears to be restricted to Bacillus spp.
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 PF10361: Protein of unknown function (DUF2434) (family)
This is a family of proteins conserved in fungi.  The function is not known.
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 PF20632: Coronavirus Non-structural protein 13, zinc-binding domain (domain)
Helicase nonstructural protein 13 (NSP13) is encoded by the replicase polyprotein 1a/ab of coronaviruses and released after a proteolytic process. It plays a critical role catalysing the unwinding of duplex oligonucleotides into single strands in an NTP-dependent manner. It In SARS-CoV, it has been shown that NSP12 directly interacts with NSP13 and enhances its helicase activity. It is a multidomain protein consisting of a N-terminal zinc-binding domain (ZBD), a stalk domain that connects the ZBD with the 1B domain and the helicase domain (that contains two RecA1 and RecA2 domains). ZBD, stalk and 1B domains are unique to nidovirus helicases. NSP13 adopts a triangular pyramid shape in which the two RecA1 and A2 and 1B domains form the triangular base while N-terminal ZBD and stalk domains are arranged at the apex of the pyramid. Recently, it has been reported that SARS-CoV-2 NSP13 as an interferon antagonist. This is the zinc-binding domain (ZBD) found at the N-terminal of NSP13 which is critically involved in nidovirus replication and transcription, modulating the ATPase/helicase activity in cis. It includes conserved cysteines and histidines involved in three zinc-binding sites.
Pfam PF20907: Flavivirus NS3 helicase, C-terminal helical domain (domain)
This domain is found at the C-terminal end of NS3 helicase (Non- structural protein 3-helicase, NS3-Hel) found in Flavivirus such as Zika virus (ZIKV) and Dengue virus type 1 (DENV-1). This protein binds RNA and unwinds dsRNA in the 3' to 5' direction. It consists of three domains. This entry represent the final domain, which is mostly alpha-helical. A highly conserved R residue located in this domain was proven essential for the enzymatic activities of the protein.
Pfam PF02201: SWIB/MDM2 domain (domain)
This family includes the SWIB domain and the MDM2 domain. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the  p53 binding domain of MDM2.
Pfam PF13308: YARHG domain (domain)
This presumed extracellular domain is about 70 amino acids in length. It is named YARHG after a conserved motif in the sequence. This domain is associated with peptidases and bacterial kinase proteins. Its molecular function is unknown.
Pfam PF14222: Cell morphogenesis N-terminal (family)
This family is the conserved N-terminal region of proteins that are involved in cell morphogenesis.
Pfam PF22872: Domain of unknown function (DUF7018) (domain)
This is a domain of unknown function found at the N-terminal of proteins containing DUF3994 at the C-terminal, in most instances. According to structure predictions, this domain consists of alpha helices suggesting they are the membrane spanning region of   of these sequences.
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 PF04299: Putative FMN-binding domain (family)
In Bacillus subtilis, family member [swissprot:P21341] (PAI 2/ORF-2) was found to be essential for growth. The SUPERFAMILY database finds that this domain is related to FMN-binding domains, suggesting this protein is also FMN-binding.
Pfam PF10263: SprT-like family (domain)
This family represents a domain found in eukaryotes and prokaryotes.  The domain contains a characteristic motif of the zinc metallopeptidases. This family includes the bacterial SprT protein.
Pfam PF14158: YndJ-like protein (family)
The YndJ-like protein family includes the B. subtilis YndJ protein [swissprot:O31813], which is functionally uncharacterised. This family is found in bacteria and archaea, and is typically between 222 and 269 amino acids in length. There are two completely conserved G residues that may be functionally important.
Pfam PF24477: At3g06530-like, ARM repeats (repeat)
This is a region of armadillo-like repeats found in the uncharacterised protein At3g06530 from Arabidopsis thaliana and similar plant sequences. This region is normally found associated with [pfam:PF12397].
Pfam PF04868: Retinal cGMP phosphodiesterase, gamma subunit (family)
Retinal rod and cone cGMP phosphodiesterases function as the effector enzymes in the vertebrate visual transduction cascade. This family represents the inhibitory gamma subunit, which is also expressed outside retinal tissues and has been shown to interact with the G-protein-coupled receptor kinase 2 signalling system to regulate the epidermal growth factor- and thrombin-dependent stimulation of p42/p44 mitogen-activated protein kinase in human embryonic kidney 293 cells.
Pfam PF00750: tRNA synthetases class I (R) (family)
Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only arginyl tRNA synthetase.
Pfam PF24978: Lrrd1 death domain (domain)
This entry represents the C-terminal death domain found in Lrrd1 protein.
Pfam PF18961: Domain of unknown function (DUF5703) (domain)
This is an N-terminal domain of unknown function mostly found in bacteria. It is possible that this domain might be a putative glycoside hydrolase. This family belongs to the Galactose Mutarotase-like superfamily.
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 PF08944: NADPH oxidase subunit p47Phox, C terminal domain (disordered)
The C terminal domain of the phagocyte NADPH oxidase subunit p47Phox contains conserved PxxP motifs that allow binding to SH3 domains, with subsequent activation of the NADPH oxidase, and generation of superoxide, which plays a crucial role in host defence against microbial infection.
Pfam PF12300: ATP-dependent RNA helicase RhlB (family)
Proteins in this entry are DEAD Box RhlB RNA Helicases  found in Xanthomonadaceae bacteria.
Pfam PF18591: Immune Mapped Protein 2 (IMP2) C-terminal domain (domain)
Immune Mapped Protein 2 (IMP2) C-terminal domain.
Pfam PF24923: IQCH-like, ATP-grasp (domain)
This domain is found in human IQ domain-containing protein H (IQCH) and similar animal proteins. IQCH may play a regulatory role in spermatogenesis.
Pfam PF22290: Dimethylamine monooxygenase subunit DmmA-like, N-terminal domain (domain)
This entry represents the N-terminal domain of the dimethylamine monooxygenase subunit DmmA from Methylocella silvestris (Msil_3607, [swissprot:B8EJ00]) and similar sequences, mainly found in proteobacteria and actinomycetes. Dimethylamine (DMA) monooxygenase is required for metabolism of trimethylamine N-oxide (TMAO). This domain may adopt a Rossmann-like fold similar to Ferredoxin/Ferric reductase-like NAD binding domain.
Pfam PF04588: Hypoxia induced protein conserved region (family)
This family is found in proteins thought to be involved in the response to hypoxia.  Family members mostly come from diverse eukaryotic organisms however eubacterial members have been identified.  This region is found at the N-terminus of the member proteins which are predicted to be transmembrane.
Pfam PF05399: Ectropic viral integration site 2A protein (EVI2A) (family)
This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours.
Pfam PF00160: Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (domain)
The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond preceding proline (the peptidyl-prolyl bond) is stabilised in the cis conformation.  Mammalian cyclophilin A (CypA) is a major cellular target for the immunosuppressive drug cyclosporin A (CsA).  Other roles for cyclophilins may include chaperone and cell signalling function.
Wikipedia: Cyclophilins (CYPs) are a family of proteins named after their ability to bind to ciclosporin, an immunosuppressant which is usually used to suppress rejection after internal organ transplants. They are found in all domains of life. These proteins have peptidyl prolyl isomerase activity, which catalyzes the isomerization of peptide bonds from trans form to cis form at proline residues and facilitates protein folding.
Pfam PF06075: Plant protein of unknown function (DUF936) (domain)
This entry consists of several hypothetical proteins from plants, whose function is unknown. According to structure predictions, this domain may adopt and OB-fold.
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 PF08481: GBS Bsp-like repeat (domain)
This domain is found as a repeat in a number of Streptococcus proteins including some hypothetical proteins and Bsp.  Bsp is a protein of group B Streptococcus (GBS) which might control cell morphology.
Pfam PF03486: HI0933-like protein Rossmann domain (domain)
This entry represents the Rossmann like domain in the HI0933 protein.
Pfam PF14648: FAM91 C-terminus (family)
This entry represents the C-terminal domain of FAM91 proteins.
Pfam PF00958: GMP synthase C terminal domain (domain)
GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. This family is the C-terminal domain specific to the GMP synthases [swissprot:P49915] [ec:6.3.5.2]. In prokaryotes this domain mediates dimerisation. Eukaryotic GMP synthases are monomers. This domain in eukaryotes includes several large insertions that may form globular domains.
Wikipedia: Guanosine monophosphate synthetase, also known as GMPS is an enzyme that converts xanthosine monophosphate to guanosine monophosphate.
Pfam PF17872: AAA lid domain (domain)
This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.
Pfam PF14044: NETI protein (family)
This family includes the B. subtilis YebG protein [swissprot:O34700], which is functionally uncharacterised. This is not a homologue of E. coli YebG, which belongs to [pfam:PF07130]. This family of proteins is found in bacteria.  Proteins in this family are typically between 42 and 66 amino acids in length and contain a conserved NETI motif.