SII-SWORD/CoKE huggingface dataset:
Pfam PF16580: C-terminal tail of astrovirus capsid projection or spike (domain)
Astro_capsid_p2 is a family of turkey astroviral spike projections.  These are globular domains on the surface of the viral capsid. Astroviruses cause diarrhoea in a variety of mammals and birds, and are small, non-enveloped, single-stranded RNA viruses. The spike carries three conserved patches on its surface which could be candidates for avian receptor-binding sites.
Pfam PF07533: BRK domain (domain)
The function of this domain is unknown. It is often found associated with helicases and transcription factors.
Pfam PF07419: PilM (family)
This family contains the bacterial protein PilM (approximately 150 residues long). PilM is an inner membrane protein that has been predicted to function as a component of the pilin transport apparatus and thin-pilus basal body.
Pfam PF09388: Spo0E like sporulation regulatory protein (family)
Spore formation is an extreme response to starvation and can also be a component of disease transmission.  Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation.  This is a family of Spo0E-like phosphatases.  The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure.
Pfam PF13878: zinc-finger of acetyl-transferase ESCO (domain)
This entry represents the zinc-inger domain of the acetyl-transferase ESCO. N-acetyltransferase ESCO1 and ESCO2 are required for the establishment of sister chromatid cohesion and couple the processes of cohesion and DNA replication to ensure that only sister chromatids become paired together. They act by mediating the acetylation of cohesin component SMC3 . They feature a conserved C-terminal domain consisting of a H2C2 zinc finger motif and an acetyltransferase domain (IPR028009), while the diverse N-terminal domain is involved in chromosome binding and could target these proteins to different chromosome structures .
Pfam PF00074: Pancreatic ribonuclease (domain)
Ribonucleases. Members include pancreatic RNAase A and angiogenins. Structure is an alpha+beta fold -- long curved beta sheet and three helices.
Wikipedia: Pancreatic ribonuclease family is a superfamily of pyrimidine-specific endonucleases found in high quantity in the pancreas of certain mammals and of some reptiles.
Pfam PF00848: Ring hydroxylating alpha subunit (catalytic domain) (domain)
This family is the catalytic domain of aromatic-ring- hydroxylating dioxygenase systems.  The active site contains a non-heme ferrous ion coordinated by three ligands.
Pfam PF03954: Hepatic lectin, N-terminal domain (family)
This is the N-terminal domain found in hepatic lectins, also known as Asialoglycoprotein receptors (ASGRs). ASGRs function as scavengers to mediate the endocytosis of plasma glycoproteins with terminal galactose and N-acetylgalactosamine units. ASGR is composed of a major (ASGR1) and a minor (ASGR2) subunits, both of which are type II, single-pass transmembrane proteins. ASGR is highly expressed in liver but has been also identified in human peripheral blood monocytes, representing a mobile pool of the receptor reaching distant sites from the liver to play a scavenger function where there is an infection or a damaged tissue. This domain includes the short, single transmembrane domain and the stalk region which mediates the oligomerisation between subunits.
Pfam PF09357: RteC protein (family)
Human colonic Bacteroides species harbor a family of large conjugative transposons, called tetracycline resistance (Tcr) elements. Activities of these elements are enhanced by pregrowth of bacteria in medium containing tetracycline, indicating that at least some Tcr element genes are regulated by tetracycline. An insertional disruption in the rteC gene abolished self-transfer of the Tcr element to Bacteroides recipients, indicating that the gene was essential for self-transfer.
Pfam PF07177: Neuralized (domain)
This family contains a conserved region approximately 60 residues long within eukaryotic neuralized and neuralized-like proteins. Neuralized belongs to a group of ubiquitin ligases and is required in a subset of Notch pathway-mediated cell fate decisions during development of the Drosophila nervous system. Some family members contain multiple copies of this region.
Pfam PF16528: Exocyst component 84 C-terminal (repeat)
Exo84_C is the C-terminal helical region of the exocyst component Exo84. This region resembles a cullin-repeat, a multi-helical bundle. The exocyst is a large complex that is required for tethering vesicles at the final stages of the exocytic pathway in all eukaryotes. Exocyst subunits are composed of mostly helical modules strung together into long rods.
Pfam PF16218: Peptidase family C101 (family)
This is a family of cysteine-peptidases that is conserved in vertebrates.  The key residues as found in SwissProt:Q96BN8 are Asp126, Cys129, His339 and Asn341.
Pfam PF13966: zinc-binding in reverse transcriptase (domain)
This domain would appear to be a zinc-binding region of a putative reverse transcriptase.
Pfam PF04905: NAB conserved region 2 (NCD2) (family)
Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of transcription  factors. This family consists of NAB conserved region 2, near the C-terminus of the protein.  It is necessary for transcriptional repression by the Nab  proteins.  It is also required for transcription activation by Nab  proteins at Nab-activated promoters.
Pfam PF20289: ABC-three component (ABC-3C) system Middle Component 1 (family)
Middle Components (MCs) of the ABC-3C biological conflict systems occupy the central position between the catalytic effector and ABC ATPases of the systems. MCs are defined by distinctive patterns of conserved charged residues. As some MCs are HTH domains, they are predicted to function akin to kleisins as DNA-binding partners for the ABC ATPases, assisting in recognition and responding to invasive elements such as DNA viruses.
Pfam PF16214: Adenylyl cyclase N-terminal extracellular and transmembrane region (family)
This family covers the N-terminal extracellular region and the first transmembrane 5-6 pass region of adenylate cyclase.
Pfam PF19739: Family of unknown function (DUF6228) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001042) is described by MIBiG as an example of the following biosynthetic classes, NRP (non-ribosomal peptide) and polyketide. It includes a member from the sanglifehrin A  biosynthetic gene cluster from Streptomyces flaveolus. 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 PF21575: DsbA, N-terminal domain (domain)
This domain is found at the N-terminal end of Putative secreted protein from Corynebacterium diphtheriae (DsbA, [swissprot:Q6NJK4]). It is usually found associated with [pfam:PF13462] and [pfam:PF01323].\ Its specific function is unknown.
Pfam PF13294: Domain of unknown function (DUF4075) (family)
The members of this family are putative mature parasite-infected erythrocyte surface antigen protein from 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 PF21540: Choline-binding repeat (repeat)
This entry represents probable choline-binding cell wall repeats.
Pfam PF20613: HipA-like kinase (domain)
This family of proteins is distantly related to the HipA protein [swissprot:P23874]. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 254 and 265 amino acids in length.
Pfam PF24511: Domain of unknown function (DUF7591) (domain)
This entry represents a domain of unknown function found in proteins from C. elegans and related sequences from Caenorhabditis species. It may adopt a CUB-like domain 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 PF21603: Bride of doubletime-like, TPR domain (repeat)
This domain is found at the C-terminal end of Bride of doubletime from Drosophila melanogaster (Bdbt) and similar proteins predominantly from arthropods. Bdbt is a mediator of the effects of the kinase Doubletime on the key circadian transcriptional regulator Period. This entry represents the entirely alpha-helical TPR domain. It is normally found associated with [pfam:PF18023].
Pfam PF07696: 7TMR-DISM extracellular 2 (domain)
This entry represents one of two distinct types of extracellular domain found in the 7TM-DISM (7TM Receptors with Diverse Intracellular Signalling Modules) bacterial transmembrane proteins. It is possible that this domain adopts a jelly roll fold and acts as a receptor for carbohydrates and their derivatives. It can also recognise Ca(II) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pfam PF19843: Family of unknown function (DUF6318) (family)
This family of proteins is functionally uncharacterised. This family of proteins 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 PF01519: Protein of unknown function DUF16 (coiled_coil)
The function of this protein is unknown.  It appears to only occur in Mycoplasma pneumoniae. The crystal structure revealed that this domain is composed of two separated homotrimeric coiled-coils.
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 PF07028: Protein of unknown function (DUF1319) (family)
This family contains a number of viral proteins of unknown function approximately 200 residues long. Family members seem to be restricted to badnaviruses.
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 PF19202: Family of unknown function (DUF5874) (family)
This is a family of uncharacterised proteins of unknown function predominantly found in Phycodnaviridae. This entry includes proteins that are also found in Fungi.
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 PF01321: Creatinase/Prolidase N-terminal domain (domain)
This family includes the N-terminal non-catalytic domains from creatinase and prolidase. The exact function of this domain is uncertain.
Wikipedia: In enzymology, a creatinase (EC 3.5.3.3) is an enzyme that catalyzes the chemical reactioncreatine + H2O  sarcosine + urea
Pfam PF17659: RPA-related protein RADX (family)
This entry includes RPA-related protein RADX from animals, the human member is also known as CXorf57. High-throughput sequencing used to identify genes driving tumorigenesis in Avian leukosis virus (ALV)-induced B-cell lymphomas, showed CXorf57 as the 10th most frequently targeted common integration site by ALV. ALV induces B-cell lymphoma and other neoplasms in chickens by integrating within or near cancer genes and perturbing their expression. RADX is a replication factor A protein-like (RPA-like), single-stranded DNA binding protein recruited to replication forks to maintain genome stability. It also modulates stalled fork protection by antagonising RAD51. These proteins consist of four tandem OB fold domains.
Pfam PF11434: Chemotaxis-inhibiting protein CHIPS (family)
The chemotaxis inhibitory protein, CHIPS, is an excreted virulence factor which acts by binding to C5a and formylated peptide receptor (FPR), blocking phagocyte responses. A fragment of CHIPS, which contains residues 31-121 comprises of an alpha helix packed onto a four stranded anti-parallel beta-sheet. Most of the conserved residues of CHIPS are present in the alpha-helix.
Pfam PF19229: Family of unknown function (DUF5882) (family)
This is a family of uncharacterised proteins of unknown function predominantly found in Marseillevirus.
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 PF02347: Glycine cleavage system P-protein (domain)
This family consists of Glycine cleavage system P-proteins [ec:1.4.4.2] from bacterial, mammalian and plant sources.  The P protein is part of the glycine decarboxylase multienzyme complex [ec:2.1.2.10] (GDC)  also annotated as glycine cleavage system or glycine synthase. GDC consists of four proteins P, H, L and T.  The reaction catalysed by this protein is:-  Glycine + lipoylprotein  S-aminomethyldihydrolipoylprotein + CO2
Wikipedia: In molecular biology, the group I pyridoxal-dependent decarboxylases, also known as glycine cleavage system P-proteins, are a family of enzymes consisting of glycine cleavage system P-proteins EC 1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex (GDC) also annotated as glycine cleavage system or glycine synthase. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor, carbon dioxide is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein. GDC consists of four proteins P, H, L and T.
Pfam PF04565: RNA polymerase Rpb2, domain 3 (domain)
RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 3, s also known as the fork domain and is proximal to catalytic site.
Pfam PF18907: Family of unknown function (DUF5662) (family)
This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 175 and 193 amino acids in length. Many proteins in this family are annotated as catalase, but this could not be verified.
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 PF04137: Endoplasmic Reticulum Oxidoreductin 1 (ERO1) (family)
Members of this family are required for the formation of disulphide bonds in the ER.
Wikipedia: ER oxidoreductin 1 (Ero1) is an oxidoreductase enzyme that catalyses the formation and isomerization of protein disulfide bonds in the endoplasmic reticulum (ER) of eukaryotes. ER Oxidoreductin 1 (Ero1) is a conserved, luminal, glycoprotein that is tightly associated with the ER membrane, and is essential for the oxidation of protein dithiols. Since disulfide bond formation is an oxidative process, the major pathway of its catalysis has evolved to utilise oxidoreductases, which become reduced during the thiol-disulfide exchange reactions that oxidise the cysteine thiol groups of nascent polypeptides. Ero1 is required for the introduction of oxidising equivalents into the ER and their direct transfer to protein disulfide isomerase (PDI), thereby ensuring the correct folding and assembly of proteins that contain disulfide bonds in their native state.
Pfam PF19993: Double-GTPase 2 (domain)
GTPase of a GTPase-centric, NTP-dependent ternary systems. The domain belongs to a previously unrecognised family of the TRAFAC clade with a conserved glutamate in its Walker B motif.
Pfam PF07447: Matrix protein VP40 (domain)
This family contains viral VP40 matrix proteins that seem to be restricted to the Filoviridae. These play an important role in the assembly process of virus particles by interacting with cellular factors, cellular membranes, and the ribonuclearprotein particle complex. It has been shown that the N-terminal region of VP40 folds into a mixture of hexameric and octameric states - these may have distinct roles.
Wikipedia: In molecular biology, VP40 is the name of a viral matrix protein. Most commonly, it is found in the Ebola virus (EBOV), a type of non-segmented, negative-strand RNA virus. Ebola virus causes a severe and often fatal haemorrhagic fever in humans, known as Ebola virus disease. The virus matrix protein VP40 is a major structural protein that plays a central role in virus assembly and budding at the plasma membrane of infected cells. VP40 proteins work by associating with cellular membranes, interacting with the cytoplasmic tails of glycoproteins and binding to the ribonucleoprotein complex.
Pfam PF12265: Histone-binding protein RBBP4 or subunit C of CAF1 complex (repeat)
The CAF-1 complex is a conserved heterotrimeric protein complex that promotes histone H3 and H4 deposition onto newly synthesized DNA during replication or DNA repair; specifically it facilitates replication-dependent nucleosome assembly with the major histone H3 (H3.1). This domain is an alpha helix which sits just upstream of the WD40 seven-bladed beta-propeller in the human RbAp46 protein. RbAp46 folds into the beta-propeller and binds histone H4 in a groove formed between this N-terminal helix and an extended loop inserted into blade six.
Pfam PF13947: Wall-associated receptor kinase galacturonan-binding (domain)
This cysteine-rich GUB_WAK_bind domain is the extracellular part of this serine/threonine kinase that binds to the cell-wall pectins.
Pfam PF21862: CiaD-like protein (family)
This entry includes the CiaD protein from Campylobacter jejuni. C. jejuni utilizes a cell binding and effector delivery mechanism to invade host cells. The Cia proteins (effectors) are exported from the bacterium's flagellar T3SS and are involved in enhancing C. jejuni cell invasion. This entry defines a pair of highly conserved C-terminal alpha helices from the proteins. Many members of the family also contain an N-terminal T3SS signal.
Pfam PF17534: Family of unknown function (DUF5453) (family)
This is a family of unknown function found in Mycoplasma. Family members have 4 predicted trans-membrane regions.
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 PF06959: RecQ helicase protein-like 5 (RecQ5) (family)
This family represents a conserved region approximately 200 residues long within eukaryotic RecQ helicase protein-like 5 (RecQ5). The RecQ helicases have been implicated in DNA repair and recombination, and RecQ5 may have an important role in DNA metabolism.
Pfam PF09373: Pseudomurein-binding repeat (repeat)
Methanothermobacter thermautotrophicus is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Pfam PF08026: Bee antimicrobial peptide (family)
This family consists of antimicrobial peptides produced by bees. These peptides have strong antimicrobial and some anti-fungal activity and has homology to abaecin which is the largest proline-rich antimicrobial peptide isolated from European bumblebee Bombus pascuorum.
Pfam PF17600: Family of unknown function (DUF5496) (family)
This is a family of unknown function found in Myoviridae.
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 PF25153: AP-5 complex subunit zeta-1, TPR repeats (repeat)
This is a region of tetratricopeptide (TPR)-like repeats found at the N-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 PF24716: Immunity protein WapI-like family (domain)
The WapI family comprises immunity proteins that are part of a toxin-immunity protein module functioning as a cellular contact-dependent growth inhibition (CDI) system. These proteins neutralize the tRNase activity of their cognate toxin WapA upon expression in E.coli. Notably, they do not inhibit WapA from other strains of Bacillus subtilis. The WapA C-terminus cannot be expressed independently in E.coli but can be cloned when its cognate immunity protein gene is present. The structure of these proteins resembles the fold of the Whirly ssDNA binding proteins.