SII-SWORD/CoKE huggingface dataset:
Protein of unknown function DUF5505 (DUF5505)
Type: Family

This is a family of unknown function found in Alphabaculovirus.
Avian adenovirus Orf17 (Avian_adenovirus_Orf17)
Type: Family

This entry represents a group of uncharacterised proteins found in various avian (fowl) adenoviruses .
Protein of unknown function DUF5507 (DUF5507)
Type: Family

This is a protein family of unknown function mainly found in Escherichia. It includes uncharacterised protein YpjC.
Transcription regulator MotB (Tscrpt_reg_MotB)
Type: Family

This entry represents the transcription regulatory protein MotB, which is found in various Enterobacteria phages .
Uncharacterised protein family, YfgI (Uncharacterised_YfgI)
Type: Family

This entry represents a group of uncharacterised proteins.
GSE/EGO complex subunit Slm4 (Slm4)
Type: Family

Budding yeast Slm4 is a component of both the GSE and the EGO complexes.

The GSE (GAP1 Sorting in the Endosomes) complex is a GTPase complex required for intracellular sorting of Gap1 out of the endosome, which is required for the eventual delivery of GAP1 to the plasma membrane . The GSE complex is composed of two small GTPases (Gtr1 and Gtr2), as well as three other proteins (Slm4, Meh1 and Ltv1) that are located in the late endosomal membrane. Gtr2 interacts with the C-terminal cytosolic domain of Gap1; a tyrosine-containing motif in this domain is necessary both to bind Gtr2 and to direct sorting of GAP1 to the plasma membrane.

The EGO complex is involved in the regulation of microautophagy . The EGO complex is composed of at least Gtr2, Slm4 and Meh1 subunits.
Mite allergen, group-7 (Mite_allergen_group-7)
Type: Family

This entry contains proteins that cause an allergic reaction in humans. Common symptoms of mite allergy are bronchial asthma, allergic rhinitis and conjunctivitis .
Uncharacterised protein family YebF (Uncharacterised_YebF)
Type: Family

This entry represents a group of uncharacterised proteins. Though their function is not known, proteins in this family have been show to be secreted .
Protein of unknown function DUF5511 (DUF5511)
Type: Family

This is a family of unknown function found in Bacillus.
Uncharacterised protein family UPF0412, YaaI (UPF0412_YaaI)
Type: Family

This entry represents proteins mainly found in gammaproteobacteria that have no known function.
Ribonuclease P/MRP subunit Pop7, fungi (RNase_P/MRP_Pop7_fungi)
Type: Family

Subunit Pop7 is a component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5'-ends. It is also a component of RNase MRP, which cleaves pre-rRNA sequences . In yeasts, RNase P consists of an RNA moiety and at least 9 protein subunits including Pop1, Pop3, Pop4, Pop5, Pop6, Pop7, Pop8, Rpp1 and Rpp2. The RNase MRP complex consists of an RNA moiety and at least 10 protein subunits including Pop1, Pop3, Pop4, Pop5, Pop6, Pop7, Pop8, Rmp1, Rpp1 and Snm1, many of which are shared with the RNase P complex.
Conotoxin I2 (Conotoxin_I2)
Type: Family

Members of this family display a XI cysteine pattern (C-C-CC-CC-C-C) and belong to the I2- superfamily conotoxins. Family members such as Kappa-conotoxin ViTx (

) and Kappa-conotoxin SrXIA (

) inhibit voltage gated potassium channels (Kv) .

Cone snail toxins, conotoxins, are small peptides with disulphide connectivity, that target ion-channels or G-protein coupled receptors. Based on the number and pattern of disulphide bonds and biological activities, conotoxins can be classified into several families . Omega, delta and kappa families of conotoxins have a knottin or inhibitor cystine knot scaffold. The knottin scaffold is a very special disulphide through disulphide knot, in which the III-VI disulphide bond crosses the macrocycle formed by two other disulphide bonds (I-IV and II-V) and the interconnecting backbone segments, where I-VI indicates the six cysteine residues starting from the N terminus; for further information see the KNOTTIN database (https://www.dsimb.inserm.fr/KNOTTIN/).

Conotoxins represent a unique arsenal of neuropharmacologically active peptides that have been evolutionarily tailored to afford unprecedented and exquisite selectivity for a wide variety of ion-channel subtypes. The toxins derived from cone snails are currently being investigated for the treatment of chronic pain, epilepsy, cardiovascular diseases, psychiatric and movement disorders, spasticity, cancer, stroke as well as an anesthetic agent. Several potential analgesic and anti-inflammatory peptides from conotoxin families have been identified and patented , e.g. Conus magus (Magus cone) (Magician's cone snail) omega-conotoxin MVIIa (Ziconotide), which is used for the treatment of chronic pain, Conus catus (Cat cone) omega-conotoxin CVID, which is tested for treating severe morphine-resistant pain stress, and Conus geographus (Geography cone) (Nubecula geographus) omega-conotoxin GVIA, which may exert antagonistic effects against beta-endorphin induced anti-nociception.
Rotavirus B, non-structural protein 5 (Rotavirus_B_NSP5)
Type: Family

This entry represents non-structural protein 5 from rotaviruses. It is involved in genome replication, playing a crucial role in the formation of virus factories (viroplasms) which are large inclusions in the cytoplasm where core-like replication intermediates are assembled and RNA replication takes place. It forms a homodimer that interacts with VP1, VP2 and NSP2; these interaction lead to the formation of the virus factories.
Uncharacterised protein family SCO3924 (Uncharacterised_SCO3924)
Type: Family

This entry contains proteins that are confined to Streptomyces species. The protein family, which includes SCO3924, is currently uncharacterised.
Protein of unknown function Y03I (Y03I)
Type: Family

This entry represents an uncharacterised protein found in a number of T4-like bacteriophages.
Protein of unknown function DUF5492 (DUF5492)
Type: Family

This is a family of unknown function found in Alphabaculovirus.
Uncharacterised protein family, plasmid pXO2-72 (Plasmid_pXO2-72)
Type: Family

This is a family of unknown function mostly found in Bacilli.
Uncharacterised protein family, YmjA (Uncharacterised_YmjA)
Type: Family

This entry contains proteins with no known function.
Protein of unknown function DUF5446 (DUF5446)
Type: Family

This is a family of unknown function found in Bacillales.
Torovirus, nucleocapsid protein (Torovirus_nucleocapsid)
Type: Family

This entry represents the nucleocapsid protein from bovine, porcine and equine toroviruses. It is the major structural component of virions associating with the virion genomic RNA.
Protein of unknown function DUF2626 (DUF2626)
Type: Family

This entry contains proteins with no known function.
Minor curli fiber component A (CsgA)
Type: Family

Curli are extracellular functional amyloids that are assembled by enteric bacteria during biofilm formation and host colonization. The csg (curli specific gene) operon encodes major structural and accessory proteins that are required for curli production. The csgBAC operon encodes the major and minor curli fibre components, CsgA and CsgB, respectively. CsgA is secreted to the extracellular milieu as an unfolded protein and forms amyloid polymers upon interacting with the CsgB nucleator . CsgA is comprised of five imperfect repeating units with highly conserved glutamine and asparagine residues that are important for amyloid formation. Each repeating unit is predicted to form a strand-loop-strand motif . In vitro, CsgC inhibits CsgA amyloid formation at substoichiometric concentrations and maintains CsgA in a non-β-sheet rich conformation, making CsgC an efficient and selective amyloid inhibitor .
Spore coat protein CotJA (Spore_coat_CotJA)
Type: Family

The open reading frame cotJA is part of the cotJ operon, which encodes spore coat proteins. Interaction of CotJA with CotJC is required for the assembly of both CotJA and CotJC into the spore coat .
Protein of unknown function DUF5512 (DUF5512)
Type: Family

This is a family of unknown function found in Bacillus.
Uncharacterised protein family YbeF (Uncharacterised_YbeF)
Type: Family

This entry contains transmembrane proteins with no known function.
Uncharacterised protein family YueH (Uncharacterised_YueH)
Type: Family

This entry contains proteins with no known function.
Protein of unknown function DUF5493 (DUF5493)
Type: Family

This is a family of unknown function mainly found in Sulfolobus viruses.
Uncharacterised protein family YecJ (Uncharacterised_YecJ)
Type: Family

This entry contains proteins with no known function.
Protein of unknown function DUF5513 (DUF5513)
Type: Family

This is a family of unknown function found in Bacillus.
Mitochondrial import receptor subunit Tom6 (Tom6)
Type: Family

Translocation of preproteins across the mitochondrial outer membrane is mediated by the translocase of the outer mitochondrial membrane (TOM) complex. Tom6 and Tom7, two small subunits of the TOM core are in direct contact with the major component of the pore, Tom40. In addition, Tom6 interacts with Tom22 in a manner that depends on the presence of preproteins in transit .
Releasin protein, Bacteriophage Mu (Phage_Mu_Releasin)
Type: Family

This family includes Releasin protein from phage Mu, also known as Gp25, which facilitates the release of the SAR-endolysin . The uncharacterised protein HI1498 from Haemophilus influenzae is also included in this entry.
Uncharacterised protein family, plasmid pXO2-34 (Plasmid_pXO2-34)
Type: Family

This entry represents various hypothetical proteins from bacteria, and is confined to Bacillus. The protein Y6533 from Bacillus anthracis is encoded on plasmid pXO2 and is currently uncharacterised.
Uncharacterised protein family, MJ1172 (Uncharacterised_MJ1172)
Type: Family

This entry includes the putative antitoxin RelB4 from Methanocaldococcus jannaschii (UniProt: Q58572). Most of the members in this entry are uncharacterised.
Uncharacterized protein C-84-like (C-84-like)
Type: Family

This entry a family of uncharacterised protein found mainly in Sulfolobus viruses.
Uncharacterised protein family HI1496 (Uncharacterised_HI1496)
Type: Family

This entry contains membrane proteins with no known function.
Family of unknown function DUF5592 (DUF5592)
Type: Family

This is a family of unknown function found in Bacilli. Family members contain two predicted trans-membrane regions.
Protein of unknown function DUF2624 (DUF2624)
Type: Family

This entry contains proteins with no known function.
Small protein YqaH-like (YqaH-like)
Type: Family

This entry represents Small protein YqaH from Bacillus subtilis and similar sequences from Bacillales. YqaH binds to and counteracts DnaA replication initiation activity. Its overexpression decreases the number of replication initiation events. It also antagonizes DnaA's transcriptional regulation activity . This protein is encoded within a cryptic phage-like region of the chromosome known as the skin element. It is part of the YqaF-YqaN operon, whose expression is negatively regulated by the skin repressor protein SknR. .
Microcin V bacteriocin (MccV)
Type: Family

Members of this family are bacterial microcin-V peptides MccV, also known as colicin V. MccV was the first antibiotic substance reported to be produced by E. coli. This antibacterial agent was initially named colicin V (ColV). However, on account of several characteristics (low molecular mass, non-inducible production, and dedicated export system), it became classified within the microcins. The structural gene cvaC encodes the 103-aa MccV precursor. The dedicated export system of MccV has been well characterised and involves two genes that form the second operon. The MccV protein has an N-terminal double glycine motif which precedes the cleavage site for the precursor protein .
Arginine vasopressin-induced protein 1/transcriptional and immune response regulator (Avpi1/C8orf4_dom)
Type: Domain

This entry includes arginine vasopressin-induced protein 1 (Avpi1) and C8orf4 protein. Avpi1 is thought to be involved in MAP kinase activation, epithelial sodium channel (ENaC) down-regulation and cell cycling . C8orf4, also known as transcriptional and immune response regulator (TCIM) or thyroid cancer 1 (TC-1), plays important roles in many signalling pathways, such as Wnt/beta-catenin signalling pathway, and is involved in the development of many cancers . C8orf4 also suppresses NOTCH2 signalling in liver cancer stem cells .
Superinfection exclusion gene product 17 (Gp17)
Type: Family

This protein, also known as Gp17, protects the P22 phage from the superinfection exclusion system of other prophages, such as fels-2 .

Gp17 found in other bacteriophages such as SPP1 (siphophage SPP1, a lytic Bacillus subtilis phage) has been identified as a tail completion protein adopting an α/β fold, and found to be located at the interface between the head-to-tail connector and the tail of bacteriophage SPP1 .
Tail sheath protein, C-terminal domain (Tail_sheath_C)
Type: Domain

This entry represents the C-terminal domain in a variety of phage tail sheath proteins, including Tail sheath protein from Bacteriophage T4 and Cis2 from Halogeometricum borinquense (Hbor_38820,

, ) .
Contractile injection system sheath initiator (Sheath_initiator)
Type: Family

This entry represents the sheath initiator protein found in contractile injection systems like diffocins, pyocins, and phage tail-like particles. The sheath initiator acts as an intermediate between the baseplate triplex and the first layer of the sheath, and between the tube tail and hub. It has a critical role in transmitting contraction signals from the baseplate wedge to the sheath through the N-terminal domain which binds to the core bundle of the triplex, while the C-terminal β-hairpin interacts with two sheath proteins on the first layer by forming a conserved handshake interface. The N-terminal loops of adjacent sheath initiators adopt different conformations to accommodate the symmetry mismatch between the baseplate wedge and hub .This entry was previously known as DUF2634.
Gene product 88 (Gp88)
Type: Domain

The proteins in this entry are uncharacterised, mainly found in bacteria and phage. These domains for a partial TIM-barrel fold.
Accessory recombination function protein (Arf)
Type: Family

Members of this family are found in Caudovirales such as Salmonella virus P22. Family members have a recombination accessory function .
Protein of unknown function DUF2737 (DUF2737)
Type: Family

The proteins in this entry are uncharacterised.
Sporulation protein Cse60 (Spore_Cse60)
Type: Family

Cse60 is expressed during sporulation in Bacillus subtilis. Transcription commences around 2h after the start of sporulation and had an absolute requirement for the transcription factor sigmaE. Maximal expression of cse60 further depended on the DNA-binding protein SpoIIID. Cse60 is an acidic product of only 60 residues, whose function is not known .
Kil protein, bacteriophage P22-type (Kil_phage_P22-type)
Type: Family

The bacteriophage P22 kil gene, like lambda kil, kills the host cell when it is expressed. The two kil genes, although analogous in cell killing and map location, have no sequence homology. The functions of the P22 and lambda kil genes are not known; however, P22 kil is essential for lytic growth in the absence of abc. Gene arf (accessory recombination function,

) is located just upstream from erf and is essential for P22 growth in the absence of kil .
Protein of unknown function DUF2644 (DUF2644)
Type: Family

This is a family of proteins of unknown function.
MIOREX complex component 7 (Mrx7)
Type: Family

This entry includes budding yeast MIOREX complex component 7 (Mrx7), which associates with mitochondrial ribosome . Its function is not clear.
Uncharacterized YnfE-like (YnfE-like)
Type: Family

This is a family of unknown function found in Bacillus.
Protein of unknown function DUF5495 (DUF5495)
Type: Family

This is a family of unknown function found in Myoviridae.
Mite allergen, group 5/21 (Mite_allergen_group-5/21)
Type: Family

This entry contains mite allergens Der p 5 and Blo t 5 , belonging to the mite group 5 allergen family, Blo t 21 and Der f 21 belonging to group 21. Mite allergens causes an allergic reaction in humans . Common symptoms of mite allergy are bronchial asthma, allergic rhinitis and conjunctivitis. Der p 5 binds to IgE.
Uncharacterised protein family, Ynq1 (Uncharacterised_Ynq1)
Type: Family

This entry represents a group of uncharacterised proteins, such as the 9.3kDa protein YNQ1 from the nqo2 3'region in Paracoccus denitrificans. They have no known function.
Small integral membrane protein 14 (Smim-14)
Type: Family

This entry represents Small integral membrane protein 14 (Smim-14) proteins found in animals. The function of this protein has not been characterised. Smim-14 is predicted to act upstream of or within blastocyst hatching and to be located in the endoplasmic reticulum membrane.
Uncharacterised protein family, Rv0898c (Uncharacterised_Rv0898c)
Type: Family

This entry contains proteins with no known function.
Protein of unknown function DUF5497 (DUF5497)
Type: Family

This is a family of unknown function found in Alphabaculovirus. It includes the ECORI-T site protein ETS, which was identified as a 1.7-kb transcript from the coding region within the EcoRI T fragment (29.0 to 30.1 map units) in Autographa californica nuclear polyhedrosis virus (AcMNPV) . This protein is produced as an early stage transcript and persists throughout infection, although its function is unknown .
Double-stranded DNA-binding protein (Double-stranded_DNA-bd)
Type: Family

DsbA is a double stranded binding protein found in bacteriophage T4 which is involved in transcriptional regulation. DsbA, along with other viral proteins, interacts with the host RNA polymerase core enzyme enabling initiation of transcription. DsbA acts as an enhancer protein of late genes in vitro. The protein consists of mainly α helices .
Uncharacterised protein family YpzA (Uncharacterised_YpzA)
Type: Family

This entry contains proteins with no known function.
Uncharacterised protein family YjbD (Uncharacterised_YjbD)
Type: Family

This entry contains proteins with no known function.
Swinepox virus, C2 (Swinepox_virus_C2)
Type: Family

This entry is represented by Swinepox virus, C2; it is a family of uncharacterised viral proteins.
Protein of unknown function DUF2716 (DUF2716)
Type: Family

This entry represents a group of uncharacterised proteins.
Uncharacterised protein family 16.1kDa (Uncharacterised_16.1kDa)
Type: Family

This entry contains uncharacterised proteins from the cpeY 3'-region. They have no known function, but are found in the phycobilisome.
Probable scaffold protein Gp13, bacteriophage T7 (Phage_T7_Gp13)
Type: Family

Gp13 may act as an organiser for the correct association of several proteins in the surrounding of the head-tail connector protein gp8 .
SMN complex, gem-associated protein 7 (SMN_gemin7)
Type: Family

Gem-associated protein 7 (Gemin7) is a 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 . Gem-associated protein 7 is found in the nucleoplasm, in nuclear "gems" (Gemini of Cajal bodies), and in the cytoplasm. Three transcript variants encoding the same protein have been found for this gene .
Ciliary microtubule inner protein 1-like (C20orf85-like)
Type: Family

Uncharacterised protein C20orf85, also known as Ciliary microtubule inner protein 1 (CIMIP1) is part of a family found in eukaryotes. It is 137 amino acids long in protein sequence length and mass is approximately 15.7kDa. The protein is present in the normal lung epithelium, but absent or downregulated in most primary non-small lung cancers. The gene is also known as Low in Lung Cancer 1 (LLC1). This protein is thought to have a role in the maintenance of normal lung function and its absence may lead to lung tumourigenesis .
Bacteriophage T4, Gp16, DNA-packaging (Phage_T4_Gp16_DNA-pack)
Type: Family

This entry represents the DNA-packaging protein Gp16 found in Enterobacteria phage T4 (Bacteriophage T4). Double-stranded DNA packaging in bacteriophages is driven by a molecular motor. The phage T4 motor is composed of the small terminase protein, Gpl6 (18kDa), the large terminase protein, Gp17 (70kDa), and the dodecameric portal protein Gp20 (61kDa). Gp16 is involved in the recognition of the viral DNA substrate, the very first step in the DNA packaging pathway, and stimulates the ATPase and packaging activities associated with Gp17 . Gp16 modulates the activity of Gp17 and is required to translocate phage T4 DNA into the head .
Viral CC chemokine-like protein FPV060 (Chemokine_CC_FPV060)
Type: Family

Members of this family found in Fowlpox virus are CC chemokine-like proteins. Fpv060 contains the conserved pattern of four cysteine residues similar to the CC chemokine family. Fpv060 also contains more cysteines in the mature protein than cellular chemokines, and one predicted trans-membrane region. In vitro studies show N-terminal glycosylation and show that Fpv060 from Fowl pox virus is much larger and has many more cysteine residues than host chemokines and viral homologues .
Uncharacterised protein family 15.3kDa (Uncharacterised_15.3kDa)
Type: Family

This entry contains proteins with no known function from the frxC 3'-region.
Ribonucleases P/MRP protein subunit Pop8 (Pop8)
Type: Family

Pop8 is a component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5'-ends. It is also a component of Ribonuclease MRP, which cleaves pre-rRNA sequences . Ribonuclease P consists of an RNA moiety and at least 9 protein subunits including POP1, POP3, POP4, POP5, POP6, POP7, POP8, RPP1 and RPR2. Ribonuclease MRP complex consists of an RNA moiety and at least 10 protein subunits including POP1, POP3, POP4, POP5, POP6, POP7, POP8, RMP1, RPP1 and SNM1, many of which are shared with the Ribonuclease P complex. This protein is found at the nucleus. Pop8 interacts with Pop5 and RPP1 to form the Pop5-Pop8-(RPP1)2 heterotetramer, which is part of the
arm module of the p[protein hook .
Uncharacterised protein family YvaD (Uncharacterised_YvaD)
Type: Family

This entry contains membrane proteins with no known function.
Uncharacterised protein family 14.7kDa (Uncharacterised_14.7kDa)
Type: Family

This entry contains proteins with no known functions from the nqo3 5'region.
Chemokine-like protein TAFA (Chemokine-like_TAFA)
Type: Family

This family is composed of five highly homologous small secreted proteins, TAFA1-5. These proteins contain conserved cysteine residues at fixed positions, and are distantly related to MIP-1alpha, a member of the CC-chemokine family. The FAM19/TAFA proteins are predominantly expressed in specific regions of the brain, and are postulated to function as brain-specific chemokines or neurokines that act as regulators of immune and nervous cells . Mouse TAFA2 is involved in neuronal survival and neurobiological functions . TAFA5 has been shown to inhibit postinjury neointima formation via sphingosine-1-phosphate receptor 2-G12/13-RhoA signaling .
Phage tail assemb.y chaperone protein, TAC (Phage_TAC_9)
Type: Family

This is a family of putative phage tail assembly chaperone proteins largely from Haemophilus and Xylella species .
mRNA interferase toxin YafO (Toxin_YafO)
Type: Family

YafO is a toxin which inhibits protein synthesis. It acts as a ribosome-dependent mRNA interferase. It forms part of a type II toxin-antitoxin system, where the YafN protein acts as an antitoxin .