SII-SWORD/CoKE huggingface dataset:
Pfam PF20776: SLS1 protein N-terminal domain (domain)
This entry represents the N-terminal helical domain found in the yeast SLS1 protein.  SLS1 is a fungal protein found bound to the mitochondrial inner-membrane. It reacts physically with fungal Kar2p to promote translocation across the endoplasmic-reticulum membrane. This action appeared to be mediated via the promotion of the Sec63p-mediated activation of Kar2p's ATPase activity. This indicates that the Sls1p protein is a GrpE-like protein in the endoplasmic reticulum. In S.cerevisiae the SLS1 gene (ScSLS1) is not essential but is also involved in ERAD and folding.
Pfam PF04977: Septum formation initiator (coiled_coil)
DivIC from B. subtilis is necessary for both vegetative and sporulation septum formation. These proteins are mainly composed of an amino terminal coiled-coil.
Pfam PF07026: Protein of unknown function (DUF1317) (family)
This family consists of several hypothetical bacterial and phage proteins of around 60 residues in length. 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 PF18610: Periplasmic binding protein domain (domain)
Treponema pallidum, the bacterium that causes syphilis, is an obligate human parasite. T. pallidum lacks the machinery for the de novo synthesis of many key nutrients therefore it acquires these nutrients from its human host. MglB-2 from T. pallidum has been shown to act as the ligand-binding element of an ABC transporter for D-glucose. The overall fold of MglB-2 resembles those of LBPs (Ligand-binding proteins sometimes called 'Periplasmic Binding Proteins') that serve as receptors for nutrients and cofactors in bacterial ABC transporters. Furthermore, structural analysis of MglB-2 i found in Treponema pallidum shows it to be one of the founding member of a family of proteins related to the 'Type I' or 'Cluster B' LBPs. This domain can also be found on the C-terminal region of [pfam:PF13407].
Pfam PF08111: Pea-VEAacid family (family)
This family consists of the PEA-VEAacid neuropeptides  family. These neuropeptides are isolated from the  abdominal perisympathetic organs of the American cockroach.  These peptides are found together with Pea-YLS-amide and Pea-SKNacid, giving a unique neuropeptide pattern in abdominal perisympathetic organs. The functions of these neuropeptides are unknown.
Pfam PF21173: DnaK suppressor protein-like, N-terminal domain (domain)
This domain is found at the N-terminal end of  DnaK suppressor protein from Agrobacterium fabrum (DksA) and similar proteins predominantly found in Alphaproteobacteria. This domain shows an all-alpha structure and is often found N-terminal to [pfam:PF01258].
Pfam PF24732: ParE-like toxin domain (domain)
This entry represents a family of bacterial proteins that are structurally similar to the ParE toxin domain. ParE is the toxin of the ParDE toxin/antitoxin system. ParE toxin binds to DNA gyrase in the absence of the ParD protein.  Some members of this family have an N-terminal zinc binding domain [pfam:PF24730]. The members of the family that do not contain the zinc finger appear to form confident homodimers with structure prediction and are often associated with likely antitoxin proteins.
Pfam PF16928: DNA/protein translocase of phage P22 injectosome (family)
Inj_translocase is a family of putative phage translocases that are involved in the injectosome mechanism. Phage P22 of Salmonella typhimurium ejects four proteins, gp7, gp16, gp20 and gp26, which are ejected from the phage virion into the bacterial cell after absorption. These four proteins may play a role in DNA ejection.
Pfam PF23167: Domain of unknown function (DUF7057) (domain)
This is a presumed domain found at the C-terminal of sequences from Gammaproteobacteria. According to structure predictions it may have an alpha/beta 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 PF06129: Chordopoxvirus G3 protein (family)
This family consists of several Chordopoxvirus specific G3 proteins. The function of this family is unknown.
Pfam PF04699: ARP2/3 complex 16 kDa subunit (p16-Arc) (domain)
The Arp2/3 protein complex has been implicated in the control of actin polymerisation.  The human complex consists of seven subunits which include the actin related proteins Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc.  The precise function of p16-Arc is currently unknown.  Its structure consists of a single domain containing a bundle of seven alpha helices.
Pfam PF08190: PIH1 N-terminal domain (domain)
This domain is involved in pre-rRNA processing.  It has has been shown to be required either for nucleolar retention or correct assembly of the box C/D snoRNP in Saccharomyces cerevisiae.
Pfam PF20730: YetF N-terminal transmembrane domain (domain)
This entry represents the N-terminal region of the YetF protein which is composed of three transmembrane helices.
Pfam PF18649: EcpB C-terminal domain (domain)
This is an immunoglobulin like domain found at the C-terminal region of EcpB. It is a periplasmic chaperone which along with EcpE help assemble the E. coli common pilus (ECP) EcpA and EcpD subunits. The C-terminal domain is predicted to contain residues that might be involved in binding a C-terminal carboxylate anchor.
Pfam PF24796: WDR55 (repeat)
This entry includes WDR55 proteins and its homologues. WDR55 are nucleolar proteins that modulate rRNA synthesis and play a central role in organogenesis. They are implicated in the development of the thymus and other organs.
Pfam PF20840: Family of unknown function (DUF5382) N-terminal domain (domain)
This is a domain of unknown function found in Caenorhabditis. It has an NTF2-like 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 PF08172: CASP C terminal (family)
This domain is the C-terminal region of the CASP family of proteins.  It is a Golgi membrane protein which is thought to have a role in vesicle transport.
Pfam PF17650: RACo linker region (domain)
This family includes reductive activator of CoFeSP (RACo) proteins, [swissprot:Q3ACS2]. Structure analysis of RACo indicate that it contains 4 regions: N-terminal region [pfam:PF00111] (residues 3-94) binding the [2Fe-2S] cluster, a linker region (residues 95-125), the middle region (residues 126-206), and the large C-terminal domain [pfam:PF14574] (residues 207-630). This entry pertains to the linker region. The linker region is only present in RACE (reductive activases for corrinoid enzymes) protein sequences with the N-terminal [2Fe-2S] cluster family [pfam:PF00111] and is absent in the RamA-like RACE proteins, suggesting that the linker domain and the N-terminal domain form one functional unit.
Pfam PF02432: Fimbrial, major and minor subunit (family)
Fimbriae (also know as pili) are polar filaments found on the bacterial surface, allowing colonisation of the host. This family consists of the minor and major fimbrial subunits.
Pfam PF16925: Tetracyclin repressor-like, C-terminal domain (domain)
This domain is found in TetR-type regulators such as AcuR, acrylate-responsive repressor of acuR-acuI-dddL operons involved in acrylate catabolism.
Pfam PF08307: Glycosyl hydrolase family 98 C-terminal domain (domain)
This putative domain is found at the C-terminus of glycosyl hydrolase family 98 proteins. This domain is not expected to form part of the catalytic activity.
Wikipedia: In molecular biology, glycoside hydrolase family 98 is a family of glycoside hydrolases.
Pfam PF23892: Cytochrome c-type biogenesis protein H Ig-like domain (domain)
This entry represents the immunoglobulin-like domain found in cytochrome c-type biogenesis protein CycH from bacteria. CycH is involved in the attachment of heme to cytochrome c apoproteins. This entry also represents the Ig-like domain of the uncharacterised protein AQ_1241 from Aquifex aeolicus. The function of this domain is unknown.
Pfam PF22901: Ferlin dsRNA-binding domain-like domain (domain)
This entry represents a domain which structurally resembles double stranded RNA binding domains found in ferlin proteins.
Pfam PF12846: AAA-like 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, including VirB4 components of the Type IV secretory pathway and conjugal transfer protein TrbE. This entry includes the arcaheal Vir4/HerA homologue CedB, a membrane-bound protein that is highly induced upon UV treatment and essential for DNA transfer between Sulfolobus cells.
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 PF07287: Acyclic terpene utilisation family protein AtuA (family)
This family consists of several bacterial and plant proteins of around 400 residues in length. One member of this family has been characterised in Pseudomonas citronellolis as AtuA, a member of a gene cluster that is essential for the acyclic terpene  utilisation (Atu) pathway.
Pfam PF03992: Antibiotic biosynthesis monooxygenase (domain)
This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species. It's occurrence as a repeat in Streptomyces coelicolor SCO1909 ([swissprot:Q9X9W3]) is  suggestive that the other proteins function as  multimers. There is also a conserved histidine which is likely to be an active site residue.
Wikipedia: In molecular biology, the ABM domain is a protein domain that is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species, which can carry out oxygenation without the assistance of any of the prosthetic groups, metal ions or cofactors normally associated with activation of molecular oxygen. The structure of ActVA-Orf6 monooxygenase from Streptomyces coelicolor, which is involved in actinorhodin biosynthesis, reveals a dimeric alpha+beta barrel topology. There is also a conserved histidine that is likely to be an active site residue. In the S. coelicolor protein SCO1909 this domain occurs as a repeat.
Pfam PF18299: ATP-grasp domain, R2K clade family 2 (domain)
Family of ATP-grasp enzymes belonging to the R2K clade, wherein one of the absolutely-conserved lysine residues has migrated to the RAGYNA domain which is a part of the core ATP-grasp module. This family is predicted to catalyze peptide ligation reactions on protein substrates in biological conflict contexts, probably between bacteriophages and their hosts.
Pfam PF10118: Predicted metal-dependent hydrolase (family)
Members of this family of proteins comprise various bacterial transition metal-dependent hydrolases.
Pfam PF10192: GPR180/TMEM145, transmembrane domain (domain)
This entry represents the seven transmembrane helical domain of GPR180 and TMEM145 proteins, conserved from nematodes to humans. This domain is similar to G-protein-coupled-receptor (GPCR) transmembrane region. GPR180 was first thought to be an orphan Rhodopsin-like GPCR, however, it was then confirmed not to signal as a GPCR. This protein is associated with TGF-beta signaling as it regulates the activity of the TGF-beta receptor complex through SMAD3 phosphorylation  Furthermore, GPR180 is also required for the action of Collagen triple helix repeat containing 1 (CTHRC1) to regulate brown and beige adipocyte activity and glucose homeostasis. Proteins in this entry are homologous to TMEM181 and Wntless (WLS), which have been described as GOST proteins (for GOLD domain seven-transmembrane helix proteins) as they share the same domain architecture consisting of a GOLD domain atop of a membrane-spanning seven-transmembrane helix domain.
Pfam PF18099: Carbohydrate binding module (family 35) (domain)
This is a delta4,5-anhydrogalacturonic acid-specific carbohydrate-binding module family 35, which is found in several prokaryotic proteins. Its crystal structure shows a jelly roll/beta-sandwich fold with 2 antiparallel sheets made of 4 and 5 antiparallel beta-strands. It is also found at the end of a family of putative glycosyl hydrolases.
Pfam PF17230: Family of unknown function (DUF5304) (family)
This family of unknown function is 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 PF06714: Gp5 N-terminal OB domain (domain)
This domain is found at the N terminus of the Gp5 baseplate protein of bacteriophage T4.  This domain binds to the Gp27 protein.  This domain has the common OB fold.
Pfam PF07975: TFIIH C1-like domain (domain)
The carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif.  The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C ([pfam:PF00130]).
Wikipedia: C1 domain binds an important secondary messenger diacylglycerol (DAG), as well as the analogous phorbol esters. Phorbol esters can directly stimulate protein kinase C, PKC.
Pfam PF03761: Nematode trypsin-6-like family (family)
This is a family of trypsin-6-like proteins found in nematodes that are part of the chymotrypsin family S1, ie a serine peptidase.  The C. elegans sequence UniProt:O01566 is trypsin-6: all the active site residues are present (His90, Asp168, Ser267).
Pfam PF23286: Disease resistance protein RPS4B-like, leucine-rich repeats (repeat)
This entry represents a region of leucine-rich repeat found in Disease resistance protein RPS4B from Arabidopsis thaliana (RPS4B) and similar proteins found in plants and some sp. RPS4B specifically recognizes the AvrRps4 type III effector avirulence protein from P.syringae.
Pfam PF01985: CRS1 / YhbY (CRM) domain (domain)
Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly.  GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants.  A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing.            In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity.  These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes.  YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome.
Wikipedia: In molecular biology, the CRM domain is an approximately 100-amino acid RNA-binding domain. The name CRM has been suggested to reflect the functions established for four characterised members of the family: Zea mays (Maize) CRS1, CAF1 and CAF2 proteins and the Escherichia coli protein YhbY. Proteins containing the CRM domain are found in eubacteria, archaea, and plants. The CRM domain is represented as a stand-alone protein in archaea and bacteria, and in single- and multi-domain proteins in plants. It has been suggested that prokaryotic CRM proteins existed as ribosome-associated proteins prior to the divergence of archaea and bacteria, and that they were co-opted in the plant lineage as RNA binding modules by incorporation into diverse protein contexts. Plant CRM domains are predicted to reside not only in the chloroplast, but also in the mitochondrion and the nucleo/cytoplasmic compartment. The diversity of the CRM domain family in plants suggests a diverse set of RNA targets.
Pfam PF07743: HSCB C-terminal oligomerisation domain (domain)
This domain is the HSCB C-terminal oligomerisation domain and is found on co-chaperone proteins.
Pfam PF16892: Chitin biosynthesis protein CHS5 N-terminus (domain)
This domain is found at the N-terminus of fungal chitin biosynthesis protein CHS5. It functions as a dimerisation domain.
Pfam PF19715: Family of unknown function (DUF6210) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001448) is described by MIBiG as an example of the following biosynthetic class, NRP (non-ribosomal peptide). It  includes a member from the malacidin A biosynthetic gene cluster  from uncultured bacterium. This family appears to be  predominantly found in bacteria.
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 PF12850: Calcineurin-like phosphoesterase superfamily domain (domain)
Members of this family are part of the Calcineurin-like phosphoesterase superfamily.
Pfam PF00652: Ricin-type beta-trefoil lectin domain (domain)
Ricin is a legume lectin from the seeds of the castor bean plant, Ricinus communis. The seeds are poisonous to people, animals and insects and just one milligram of ricin can kill an adult.

Primary structure analysis has shown the presence of a similar domain in many carbohydrate-recognition proteins like plant and bacterial AB-toxins, glycosidases or proteases . This domain, known as the ricin B lectin domain, can be present in one or more copies and has been shown in some instance to bind simple sugars, such as galactose or lactose.

The ricin B lectin domain is composed of three homologous subdomains of 40 amino acids (alpha, beta and gamma) and a linker peptide of around 15 residues (lambda). It has been proposed that the ricin B lectin domain arose by gene triplication from a primitive 40 residue galactoside-binding peptide . The most characteristic, though not completely conserved, sequence feature is the presence of a Q-W pattern. Consequently, the ricin B lectin domain as also been refered as the (QxW)3 domain and the three homologous regions as the QxW repeats . A disulphide bond is also conserved in some of the QxW repeats .

The 3D structure of the ricin B chain has shown that the three QxW repeats pack around a pseudo threefold axis that is stabilised by the lambda linker . The ricin B lectin domain has no major segments of a helix or Î²-sheet but each of the QxW repeats contains an Ï-loop . An idealized Ï-loop is a compact, contiguous segment of polypeptide that traces a 'loop-shaped' path in three-dimensional space; the main chain resembles a Greek omega.
Wikipedia: Ricin ( RY-sin) is a lectin (a carbohydrate-binding protein) and a highly potent toxin produced in the seeds of the castor oil plant, Ricinus communis. The median lethal dose (LD50) of ricin for mice is around 22 micrograms per kilogram of body weight via intraperitoneal injection. Oral exposure to ricin is far less toxic. An estimated lethal oral dose in humans is approximately one milligram per kilogram of body weight.
Pfam PF16751: Anti-sigma-D factor RsdA to sigma factor binding region (domain)
RsdA_SigD_bd is a domain at the N-terminus of anti-sigma-D factor RsdA proteins. It binds to the -35 promoter binding domain of sigma-D. The complex formed regulates the transcriptional expression of the bacterium.
Pfam PF07051: Ovarian carcinoma immunoreactive antigen (OCIA) (domain)
This family consists of several ovarian carcinoma immunoreactive antigen  (OCIA) and related eukaryotic sequences. The function of this family is unknown.
Pfam PF09549: Bpu10I restriction endonuclease (family)
This family includes the Bpu10I (recognises and cleaves CCTNAGC (-5/-2)) restriction endonucleases.
Pfam PF16941: Putative cyclodextrin porin (family)
CymA has been identified in Klebsiella oxytoca as the outer membrane component of the cyclodextrin (CD) uptake and metabolism system .
Pfam PF20363: Family of unknown function (DUF6658) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 177 and 198 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 PF03237: Terminase large subunit, T4likevirus-type, N-terminal (domain)
This entry represents the N-terminal domain of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. It includes the terminase large subunit of Bacteriophage T4 (terminase gene 17, Gp17). Homologues are also found in Gene Transfer Agents (GTA), including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in 4].
Pfam PF10086: YhfC intramembrane metalloprotease (family)
This family includes proteins that are mainly from Firmicutes and Proteobacteria.  Family members bear the consensus signature of 'EExxR' the second motif 'HxxxE' and the third motif 'H/Qxxxs'. The fourth motif, 'HxxxB', is shared by the PrsW proteases [pfam:PF13367] and the CPBP [pfam:PF02517], and APH-1 families. There are currently no experimental functional data for members of this group, however, they are predicted to be integral membrane proteins with several transmembrane segments and hypothesized metalloprotease function. YhfC intramembrane metalloprotease, CPBP family (type II CAAX Proteases and Bacteriocin Processing enzymes), PrsW proteases and APH-1 are distantly related. They share four predicted core transmembrane segments and possess similar, yet distinct sets of sequence motifs.
Pfam PF16666: Unstructured region on MAGI (disordered)
MAGI_u5 is a region of natively unstructured but highly conserved sequence on a subset, of higher eukaryote, membrane-associated guanylate kinase with WW and PDZ domain-containing proteins. The function is not known. This region lies between two PDZ, [pfam:PF00595] domains.