SII-SWORD/CoKE huggingface dataset:
Uncharacterised conserved protein UCP029033, periplasmic protein (UCP029033)
Type: Family

This group represents a predicted periplasmic protein.
Uncharacterised conserved protein UCP029037 (UCP029037)
Type: Family

This group represents uncharacterised conserved proteins.
Ribosomal RNA large subunit methyltransferase F (rRNA_lsu_MeTfrase_F)
Type: Family

This entry represents proteins that methylate the adenine in position 1618 of 23S rRNA which belong to the METT10D/rlmF family .
Uncharacterised conserved protein UCP029195, PTS-EIIA 2 (UCP029195_PTS_EIIA2)
Type: Family

This group represents an uncharacterised protein with PTS_EIIA 2 domain.
Bacteriophage P2, GpU (Phage_P2_GpU)
Type: Family

This entry is represented by Bacteriophage P2, GpU. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Uncharacterised conserved protein UCP029215 (UCP029215)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmL (TrmL)
Type: Family

This entry represents tRNA (cytidine/uridine-2'-O-)-methyltransferase that methylate the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA) . They catalyse the methyl transfer from S-adenosyl-L-methionine to the 2'-OH of the wobble nucleotide. Some uncharacterised plant sequences are also included in this entry.
Uncharacterised conserved protein UCP029342 (UCP029342)
Type: Family

This family represents uncharacterised proteins with no known function from bacteria.
Uncharacterised conserved protein UCP029389, subtilisin-related (UCP029389_subtilisin-related)
Type: Family

This entry contains proteins related to subtilisin-type serine proteases that belong to MEROPS peptidase family S8 but are classed as non-peptidase homologues, and which have no known function.
Uncharacterised conserved protein UCP029393 (UCP029393)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029394 (UCP029394)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029416, tyrosine-protein phosphatase, Mlr4629 (UCP029416_PTP)
Type: Family

This group represents a predicted tyrosine-protein phosphatase, Mlr4629 type.
Uncharacterised conserved protein UCP029477 (UCP029477)
Type: Family

This entry represents a family of bacterial uncharacterised proteins that includes PA2169 from Pseudomonas aeruginosa (

). This protein shows a ferritin-like topology with a four-helix-bundle fold that lacks metal-ion-binding site typical of the ferritin family but has a potential metal-binding site . Its function is still unknown.
Uncharacterised conserved protein UCP029502 (UCP029502)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029505 (UCP029505)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029509, membrane (UCP029509)
Type: Family

This group represents a predicted membrane protein.
Uncharacterised conserved protein UCP029543 (UCP029543)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029570 (UCP029570)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029594 (UCP029594)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, these proteins are predicted integral membrane proteins (with several transmembrane segments), and are present in an operon with a predicted multidrug efflux pump.
Lectin, sugar-binding (Lectin_sugar-bd)
Type: Family

This group represents a lectin LecB.
Uncharacterised conserved protein UCP029611 (UCP029611)
Type: Family

This group represents an uncharacterised conserved protein.
Imm52 family, TsiT-like (TsiT-like)
Type: Family

This entry represents a family of proteins specific to beta and gamma proteobacteria, including the type VI secretion system (T6SS) immunity protein TsiT from Pseudomonas aeruginosa (

), which belongs to the Imm52 family. This protein can suppress the virulence of TseT . TsiT adopts a β-sandwich fold with nine α-helices and an eight-stranded antiparallel central β-sheet. It has a large electro-negative pocket with hydrophobic surroundings that play a role in the interaction with TseT .
Uncharacterised conserved protein UCP029644, LysM, PA4035 (UCP029644)
Type: Family

This group represents an uncharacterised protein with LysM motif, PA4035 type.
Uncharacterised conserved protein UCP029658, TPR (UCP029658_TPR)
Type: Family

This group represents an uncharacterised protein with TPR repeats, PA4299 type.
Uncharacterised conserved protein UCP029669 (UCP029669)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Pentapeptide repeat-containing uncharacterised conserved protein UCP029688 (UCP029688_pentapep)
Type: Family

This group represents an uncharacterised protein with pentapeptide repeat.
Uncharacterised conserved protein UCP029691 (UCP029691)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Opine metallophore dehydrogenase (Opine_metallophore_DH)
Type: Family

A member of this family has been identified in Staphylococcus aureus as a dehydrogenase involved in the synthesis of a new opine metallophore, named staphylopine. It is encoded as part of an operon that also includes an histidine racemase and an enzyme distantly related to nicotianamine synthase . Staphylopine is involved in metal acquisition, chelating nickel, cobalt, zinc, copper or iron, depending on the growing conditions. Metal acquisition is vital for bacteria growing in metal-scarce environments, such as inside a host in the case of pathogens.

This family also includes similar synthases from Pseudomonas aeruginosa, and Yersinia pestis, which catalyse the final step in the biosynthesis of pseudopaline and yersinopine, respectively .
Uncharacterised conserved protein UCP029693 (UCP029693)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP029727 (UCP029727)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised protein family UPF0317 (UPF0317)
Type: Family

This family contains putative, uncharacterised proteins from bacteria that are related to mitochondrial D-glutamate cyclase.
Small ribosomal subunit protein mS23, fungi (Ribosomal_mS23_fun)
Type: Family

This entry represents a family of fungal 37S mitochondrial ribosomal mS23 proteins, previously known as S25, which are a component of the mitochondrial small ribosomal subunit .
Competence protein ComGC (ComGC)
Type: Family

This family represents Competence protein ComGC from Streptococcus pneumoniae and similar proteins from firmicutes. ComGC, also known as Major pilin ComGC, is a major component of the type IV-like pilus (T4P) that is required for transformation .

The comG operon of Bacillus subtilis encodes seven membrane associated proteins which function in binding of transforming DNA to the competent cell surface . ComGC, GD, GE and GG have N-terminal sequence motifs typical of type 4 pre-pilins and are processed by a pathway that requires the product of comC, also an essential competence gene. They form pilin-like structures that are localised to the cytoplasmic membrane and cell wall . The comG operon also consist of ComGF, a small integral membrane protein, ComGA and ComGB, which are predicted to be a nucleotide binding protein and an integral membrane protein respectively . When strains missing each of the 7 proteins are created, they were all found to be nontransformable and failed to bind transforming DNA to the cell surface .

Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions .
Uncharacterised conserved protein UCP029962 (UCP029962)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP030042 (UCP030042)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP030050, HTH transcriptional regulator, BH1869 (UCP030050_HTH)
Type: Family

This group represents a predicted HTH transcriptional regulator, BH1869 type.
Uncharacterised conserved protein UCP030066 (UCP030066)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP030092 (UCP030092)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP030125 (UCP030125)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised phage-associated protein UCP030140 (UCP030140)
Type: Family

This entry includes the bacteriophage gamma, ORF gammalsu0035. The characteristics of the protein distribution suggest prophage matches.
Uncharacterised conserved protein UCP030175 (UCP030175)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in firmicutes.
Damage-control phosphatase At2g17340 (At2g17340)
Type: Family

This entry includes damage-control phosphatase At2g17340 from Arabidopsis, which is a metal-dependent phosphatase with probable damage-control functions . It has phosphatase activity against several substrates, including sugar phosphates and p-nitrophenyl phosphate(pNPP), preferring sugar phosphate substrates, including the extremely potent glycating agents ribose-5-phosphate and erythrose-4-phosphate .
Mannosyltransferase, MA4085, predicted (Manno-Trfase_MA4085_prd)
Type: Family

This protein family represents a group of predicted mannosyltransferases, MA4085 type.

This group of proteins include Dolichyl-phosphate-mannose-protein mannosyltransferase from the extremely halophilic archaea Haloarcula hispanica (Dpm4, also known as Agl23, (

). This protein is involved in both N- and O-glycosylation of S-layer glycoproteins in whole cells, but not in lysates, suggesting a flippase-like or flippase-associated function .
Haem oxygenase (decyclizing), plant (Haem_Oase_decyc_pln)
Type: Family

This group represents a haem oxygenase (decyclizing), plant type.
Small heat shock protein, predicted, plant (Small_heat_shock_prot_prd_pln)
Type: Family

This group represents a predicted small heat shock protein, plant type.
Uncharacterised conserved protein UCP030365 (UCP030365)
Type: Family

This entry represents a group of uncharacterised proteins from plants.
Uncharacterised protein family, Vng0742h (Uncharacterised_Vng0742h)
Type: Family

This family of proteins is functionally uncharacterised. Some family members have been annotated as being involved in signal transduction, on the basis they possess a DICT domain (

). However, there is no experimental evidence to support this function, and the DICT domain's suggested role in sensory function in highly speculative.
Autotransporter, YhjY, predicted (Autotranspt_YhjY_prd)
Type: Family

This group represents a predicted autotransporter, YhjY type. Secretion of protein products occurs by a number of different pathways in bacteria. One of these pathways, known as the type IV pathway, was first described for the IgA1 protease . The protein component that mediates secretion through the outer membrane is contained within the secreted protein itself, hence the proteins secreted in this way are called autotransporters. yhjY is part of the RpoS regulon, which is involved in DNA repair .
Inner membrane protein YdjM (YdjM)
Type: Family

This entry represents the inner membrane protein YdjM from bacteria .
Uncharacterised conserved protein UCP030791 (UCP030791)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP030798 (UCP030798)
Type: Family

This entry represents a family of uncharacterised conserved proteins mainly found in Gammaproteobacteria, including Uncharacterized protein YjcB from Escherichia coli (

).
Uncharacterised conserved protein UCP030811 (UCP030811)
Type: Family

This group represents an uncharacterised conserved protein.
Protein kinase YegI-like (YegI-like)
Type: Family

Proteins in this entry contain the protein kinase and the HhH DNA-binding domains. This entry includes YegI, a putative serine/threonine kinase .
Diacylglycerol kinase, plant (Diacylglycerol_kinase_pln)
Type: Family

This entry represents a group of plant diacylglycerol kinases, including Arabidopsis AtDGK3/4/5/7. They regulate the level of the second messenger diacylglycerol and produces phosphatidic acid (PA), another signalling molecule .
Dehydrase, ECs4332, predicted (Dehydrase_ECs4332_prd)
Type: Family

This group represents a predicted dehydrase, ECs4332 type. Some proteins in this entry share protein sequence similarity with 3-hydroxymyristoyl-(acyl carrier protein) dehydratase FabZ from E. coli .
Glycoporin RafY (Glycoporin_RafY)
Type: Family

This group represents a glycoporin RafY.
Sigma intracellular receptor 2 (Sigma2_recept)
Type: Family

Sigma-2 receptor, also known as TMEM97, is an intracellular orphan receptor highly expressed in various rapidly proliferating cancer cells and regarded as a cancer cell biomarker. It is a cytochrome-related protein that binds to various pharmacological compounds, and modulates the cytosolic Ca2+ concentration, dopaminergic transmission, and cocaine-induced addiction behavior . It may have a role as regulator of cellular cholesterol homeostasis and function as a sterol isomerase .
Phosphatase PHOSPHO-type (Pase_PHOSPHO-typ)
Type: Family

This group represents phosphatases related to PHOSPHO1 and PHOSPHO2 . It includes plant phosphatases with homology to the haloacid dehalogenase (HAD) superfamily . PHOSPHO1 is a phosphoethanolamine/phosphocholine phosphatase , while PHOSPHO2 has high activity toward pyridoxal 5'-phosphate (PLP), and it is active at much lower level toward pyrophosphate, phosphoethanolamine (PEA)and phosphocholine (PCho) .
Thiamin pyrophosphokinase, eukaryotic (Thiamin_pyrophosphokinase_euk)
Type: Family

This group represents eukaryotic thiamin pyrophosphokinase.
Uncharacterised conserved protein UCP031074 (UCP031074)
Type: Family

This group consists of uncharacterised conserved proteins from the bacterial family Chlamydiaceae.
Uncharacterised conserved protein UCP031088, alpha/beta hydrolase, At1g15070 (UCP031088_abhydr)
Type: Family

This group represents a predicted alpha/beta hydrolase, At1g15070 type, from plants.
Uncharacterised conserved protein UCP031143 (UCP031143)
Type: Family

This group represents an uncharacterised conserved protein.
Uncharacterised conserved protein UCP031277 (UCP031277)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Uncharacterised conserved protein UCP031279 (UCP031279)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. Members of this entry are mainly found in proteobacteria.
Integral membrane protein SYS1 (Integral_membrane_SYS1)
Type: Family

This entry represents SYS1 homologues (hSYS1). hSYS1 is a multi-pass membrane protein found in the Golgi apparatus membrane. hSYS1 appears to be involved in protein trafficking and may serve as a receptor for ARFRP1 (Arf-related protein 1), the human homologues of Arl3p . Arf family members are GTPases that are crucial for the organisation of membrane traffic. They act by recruiting coat proteins to form transport vesicles, and motor proteins to move both transport carriers and organelles . Arfs can also carry lipid modifications that are involved in membrane recruitment. The function of hSYS1 is unknown, but it controls the location of ARFRP1, apparently by forming a complex with the protein, and could therefore function in the Arl3p/Arl1p pathway.
Uncharacterised phage-associated protein (Uncharacterised_phage-assoc)
Type: Family

This entry represents uncharacterised phage-associated proteins. It includes Orf19 from Lactococcus phage 4268.
Cell wall-active antibiotic response protein LiaF (Cell_wall_LiaF)
Type: Family

The LiaRS two-component system is part of the regulatory network orchestrating the cell-envelope stress response in Bacillus subtilis. It responds to perturbations with the cell envelope, especially antibiotics that interfere with the lipid II and undecaprenol cycle, such as bacitracin or vancomycin. LiaRS-dependent regulation is strictly repressed by the membrane protein LiaF and it integrates both positive and negative feedback loops to transduce cell envelope stress signals . This entry represents a group of cell wall-active antibiotic response proteins, including LiaF and YvqF types.
Uncharacterised conserved protein UCP031601 (UCP031601)
Type: Family

There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, members contain multiple membrane-spanning regions and are found in association with bacteriocins .
Competence operon G, ComGF (Competence_ComGF)
Type: Family

This entry represents a competence protein ComGF (also known as ComG operon protein 6), which is required for transformation and DNA binding .

The comG operon of Bacillus subtilis encodes seven membrane associated proteins which function in binding of transforming DNA to the competent cell surface . ComGC, GD, GE and GG have N-terminal sequence motifs typical of type 4 pre-pilins and are processed by a pathway that requires the product of comC, also an essential competence gene. They form pilin-like structures that are localised to the cytoplasmic membrane and cell wall . The comG operon also consist of ComGF, a small integral membrane protein, ComGA and ComGB, which are predicted to be a nucleotide binding protein and an integral membrane protein respectively . When strains missing each of the 7 proteins are created, they were all found to be nontransformable and failed to bind transforming DNA to the cell surface .

The development of genetic competence in Bacillus subtilis is a highly regulated adaptive response to stationary-phase stress. For competence to develop, the transcriptional regulator, ComK, must be activated. ComK is required for the expression of genes encoding proteins that function in DNA uptake. In log-phase cultures, ComK is inactive in a complex with MecA and ClpC. The comS gene is induced in response to high culture cell density and nutritional stress and its product functions to release active ComK from the complex. ComK then stimulates the transcription initiation of its own gene as well as that of the late competence operons .

Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions .
Putative competence-induced protein Ccs4 (Competence-induced_Ccs4)
Type: Family

Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions .

These proteins are part of a set in Streptococcus pneumoniae that undergo late induction by competence pheromone . There is currently no data that address the function, nor is it known if induction occurs in other species. However, the proteins are predicted to be integral membrane proteins (with several transmembrane segments).
Protein of unknown function DUF2129 (DUF2129)
Type: Family

This is a group of uncharacterised conserved protein from bacteria.
S-adenosyl-L-methionine dependent methyltransferase, Alr7345, predicted (S-AdoMet-dep_MeTrfase_Alr7345)
Type: Family

This entry represents proteins predicted to function as S-adenosyl-L-methionine dependent methyltransferases, such as the uncharacterised protein Alr7345 from Anabaena sp. (strain PCC 7120).
Transcription regulator, AraC, predicted (Tscrpt_reg_031684_prd)
Type: Family

This group represents a predicted transcriptional regulator, AraC type.