SII-SWORD/CoKE huggingface dataset:
Protein of unknown function DUF2989 (DUF2989)
Type: Family

Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
Protein of unknown function DUF2993 (DUF2993)
Type: Family

This entry represents a bacterial protein family that includes several uncharacterised proteins. Some members of this group are predicted to be phospholipid-binding proteins from the LmeA family. LmeA is critical for controlling the mannan chain length of lipomannan/lipoarabinomannan .
Protein of unknown function DUF2996 (DUF2996)
Type: Family

This family of proteins has no known function.
Protein of unknown function DUF2997 (DUF2997)
Type: Family

This family of proteins has no known function.
Protein of unknown function DUF2999 (DUF2999)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3006 (DUF3006)
Type: Family

This family of proteins has no known function.
Protein of unknown function DUF3010 (DUF3010)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3012 (DUF3012)
Type: Family

This family of proteins with unknown function is restricted to Gammaproteobacteria.
Protein of unknown function DUF3013 (DUF3013)
Type: Family

This bacterial family of proteins with unknown function appear to be restricted to Firmicutes.
Protein of unknown function DUF3011 (DUF3011)
Type: Family

Most proteins in this family are from bacteria. However, this entry also includes lectin ADEL from Aplysia dactylomela (Spotted sea hare). ADEL can agglutinate and inhibit biofilm formation of Staphylococcus aureus .
Protein of unknown function DUF3014 (DUF3014)
Type: Family

This family of proteins with unknown function appears to be restricted to Proteobacteria.
Protein of unknown function DUF3015 (DUF3015)
Type: Family

This bacterial family of proteins has no known function.
Mediator complex, subunit Med21 (Mediator_Med21)
Type: Family

The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins.

The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11.

Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator .
Protein of unknown function DUF3017 (DUF3017)
Type: Family

This bacterial family of proteins with unknown function appear to be restricted to Actinobacteria.
SPP41, DUF3020 (SPP41_DUF3020)
Type: Domain

This domain of unknown function is found in the conserved fungal proteins SPP41 (suppressor of PrP4, there are four members, SPP4 1-4) . Although the function of SPP41 is not known, it has been shown that it is involved in negative regulation of expression of spliceosome components PRP4 and PRP3 and that it relocalizes to the cytosol in response to hypoxia .
Protein of unknown function DUF3023 (DUF3023)
Type: Family

This bacterial family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Protein of unknown function DUF3024 (DUF3024)
Type: Family

This entry representrepresents a group of proteins of unknown function. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Protein of unknown function DUF3022 (DUF3022)
Type: Family

This family of proteins with unknown function appears to be restricted to Proteobacteria.
Protein of unknown function DUF3025 (DUF3025)
Type: Family

Some members in this bacterial family of proteins are annotated as transmembrane proteins however this cannot be confirmed. Currently this family of proteins has no known function.
Protein of unknown function DUF3027 (DUF3027)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria.
Focadhesin, C-terminal domain (Focadhesin_C)
Type: Domain

This entry represents the C-terminal domain of human Focadhesin and similar animal proteins. This domain is predicted to have an all-α configuration.

Focadhesin (FOCAD) is focal adhesion protein with potential tumour suppressor function in gliomas .
Protein of unknown function DUF3034 (DUF3034)
Type: Family

This family of proteins with unknown function appears to be restricted to Proteobacteria.
Mediator complex, subunit Med25, PTOV domain (Med25_PTOV)
Type: Domain

Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species . It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II, but it would appear that each of the four different sections has a slightly different function . The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. The PTOV domain is the domain through which Med25 co-operates with the histone acetyltransferase CBP, which is involved in chromatin remodeling .
Protein of unknown function DUF3035 (DUF3035)
Type: Family

This family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Mediator complex, subunit Med25, synapsin 1 (Mediator_Med25_SD1)
Type: Domain

The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA, domain, this SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This The function of the SD domains is unclear .
Protein of unknown function DUF3037 (DUF3037)
Type: Family

This bacterial family of proteins has no known function.
Protein of unknown function DUF3038 (DUF3038)
Type: Family

This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Protein of unknown function DUF3039 (DUF3039)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria.
Protein of unknown function DUF3040 (DUF3040)
Type: Family

Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Protein of unknown function DUF3042 (DUF3042)
Type: Family

This family of proteins with unknown function appears to be restricted to Firmicutes.
Protein of unknown function DUF3043 (DUF3043)
Type: Family

Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Bacteriophage T4, Gp24.3 (Phage_T4_Gp24.3)
Type: Family

This entry is represented by Bacteriophage T4, Gp24.3; it is a family of uncharacterised viral proteins.
Bacteriophage T4, Gp30.1 (Phage_T4_Gp30.1)
Type: Family

This entry is represented by Bacteriophage T4, Gp30.1; it is a family of uncharacterised viral proteins.
Protein of unknown function DUF2544 (DUF2544)
Type: Family

This is a bacterial family of proteins with unknown function.
Protein of unknown function DUF3046 (DUF3046)
Type: Family

This family of proteins are mostly found in Actinobacteria. This entry includes Rv2742c from Mycobacterium tuberculosis. Rv2742c is involved in preservation of envelope integrity and tolerance to surface stress .
Protein of unknown function DUF3047 (DUF3047)
Type: Family

This bacterial family of proteins has no known function.
The fantastic four family (FAF)
Type: Family

This entry represents a plant specific family called "fantastic four" (FAF). Members in this family include FAF1/2/3/4 from Arabidopsis thaliana. They may be modulators of the genetic circuit that regulates the meristem . This family also includes Protein SUGARY ENHANCER 1 from maize, which has a FAF domain and is involved in starch metabolism in endosperm .
Sugarcane yellow leaf virus (SCYLV), Orf0 (SCYLV_Orf0)
Type: Family

This entry is represented by Sugarcane yellow leaf virus (SCYLV), Orf0; it is a family of uncharacterised viral proteins.
Protein of unknown function DUF3052 (DUF3052)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria.
Protein of unknown function DUF3053 (DUF3053)
Type: Family

Some members in this family of proteins are annotated as the membrane protein YiaF. No function is currently known.
Protein of unknown function DUF3054 (DUF3054)
Type: Family

Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
SAV0927-like (SAV0927-like)
Type: Family

This family of proteins includes SAV0927 from Staphylococcus aureus (

) and similar proteins predominantly found in Firmicutes. This protein forms a structure that contains five dimers. Each protomer shows an anti-parallel five-stranded β-sheet, with one strand from the other subunit in the dimer, and three α-helices at the C-terminal end. Its function is unknown .
DUF3048, N-terminal (DUF3048_N)
Type: Domain

This entry represents the N-terminal domain of a group of proteins with unknown function. Proteins containing this domain include the YerB protein from Bacillus subtilis. YerB interacts with PcrA helicase. The interaction is not essential for cell viability or repair of UV-induced lesions .
Protein of unknown function DUF3060 (DUF3060)
Type: Family

Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed.
THO complex, subunitTHOC2, C-terminal (THO_THOC2_C)
Type: Domain

THO and TREX form a eukaryotic complex which functions in messenger ribonucleoprotein metabolism and plays a role in preventing the transcription-associated genetic instability . Tho2, along with four other subunits forms THO .

This entry represents a conserved domain found towards the C terminus of these proteins.
Mediator of RNA polymerase II transcription subunit 25, von Willebrand factor type A domain (Mediator_Med25_VWA)
Type: Domain

The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex .
Protein of unknown function DUF3067 (DUF3067)
Type: Family

Proteins in this family are found in plants and cyanobacteria has no known function. The structure of this domain has been solved by NMR for the alr2454 protein . The structure was determined to be a novel fold composed of four α helices and a sheet of three anti-parallel β-strands.
Domain of unknown function DUF3071 (DUF3071)
Type: Domain

This domain is found at the N-terminal of Septation protein H (SepH), a protein that was firstly characterised in Streptomyces venezuelae, and homologs were identified in Mycobacterium smegmatis (recently renamed to Mycolicibacterium smegmatis). SepH binds directly to cell division protein FtsZ to stimulate the assembly of FtsZ protofilaments . This domain contains a predicted HTH motif .
Protein of unknown function DUF3069 (DUF3069)
Type: Family

This family of proteins with unknown function appear to be restricted to Gammaproteobacteria.
Porin PorA (PorA)
Type: Family

PorA is a channel-forming protein found mostly in Gram-positive bacteria .
Protein of unknown function DUF3072 (DUF3072)
Type: Family

This bacterial family of proteins has no known function.
Protein of unknown function DUF3073 (DUF3073)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria.
Protein of unknown function DUF3077 (DUF3077)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3078 (DUF3078)
Type: Family

This bacterial family of proteins has no known function.
Mediator complex, subunit Med24, (Mediator_Med24)
Type: Family

This subunit of the Mediator complex appears to be conserved only from insects to humans. It is essential for correct retinal development in fish. Subunit composition of the mediator contributes to the control of differentiation in the vertebrate CNS as there are divergent functions of the mediator subunits Crsp34/Med27, Trap100/Med24, and Crsp150/Med14 .
Protein of unknown function DUF3079 (DUF3079)
Type: Family

This family of proteins with unknown function appears to be restricted to Proteobacteria.
Protein of unknown function DUF3080 (DUF3080)
Type: Family

Some members of this family are annotated as lipoproteins, due to the lipobox motif that is found in some of the sequences, such as

from Halomonas elongata. Currently this family has no known function.
Protein of unknown function DUF3081 (DUF3081)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3083 (DUF3083)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3082 (DUF3082)
Type: Family

This family of proteins has no known function.
Protein of unknown function DUF3084 (DUF3084)
Type: Family

This bacterial family of proteins has no known function.
Protein of unknown function DUF3085 (DUF3085)
Type: Family

This family of proteins with unknown function appears to be restricted to Proteobacteria.
Protein of unknown function DUF3086 (DUF3086)
Type: Family

This family of proteins with unknown function are mostly from Cyanobacteria.
Protein of unknown function DUF3087 (DUF3087)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3088 (DUF3088)
Type: Family

This family of proteins with unknown function appears to be restricted to Proteobacteria.
Protein of unknown function DUF3089 (DUF3089)
Type: Family

This family of proteins has no known function.
Protein of unknown function DUF3090 (DUF3090)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria.
Protein of unknown function DUF3091 (DUF3091)
Type: Family

This eukaryotic family of proteins has no known function.
Protein of unknown function DUF3093 (DUF3093)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria. Some members are annotated as alanine rich membrane proteins however this cannot be confirmed.
Protein of unknown function DUF3094 (DUF3094)
Type: Family

This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Protein of unknown function DUF3095 (DUF3095)
Type: Family

Some members in this bacterial family of proteins are annotated as adenylyl cyclase however this cannot be confirmed. Currently no function is known.
Protein of unknown function DUF3096 (DUF3096)
Type: Family

This family of proteins with unknown function are mostly from Proteobacteria.
DUF3097, C-terminal domain (DUF3097_C)
Type: Domain

This entry represents a domain found at the C-terminal end of a group of uncharacterised proteins mainly found in Actinomycetes. Members of this group are thought to have a nuclease function . This domain is predicted to show a Toprim-like configuration.
Protein of unknown function DUF3098 (DUF3098)
Type: Family

This bacterial family of proteins has no known function.
Protein of unknown function DUF3099 (DUF3099)
Type: Family

Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Protein of unknown function DUF3100 (DUF3100)
Type: Family

Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Protein of unknown function DUF3102 (DUF3102)
Type: Family

This family of proteins is functionally uncharacterised.
Protein of unknown function DUF3103 (DUF3103)
Type: Family

This family of proteins with unknown function appear to be restricted to Proteobacteria.
Protein of unknown function DUF3104 (DUF3104)
Type: Family

This family of proteins with unknown function are mostly from Cyanobacteria.
Protein of unknown function DUF3105 (DUF3105)
Type: Family

Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Protein of unknown function DUF3106 (DUF3106)
Type: Family

Some members in this family of proteins are annotated as transmembrane proteins however this cannot be confirmed. Currently no function is known.
Protein of unknown function DUF3107 (DUF3107)
Type: Family

Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Protein of unknown function DUF3108 (DUF3108)
Type: Family

This bacterial family of proteins has no known function.
Protein of unknown function DUF3109 (DUF3109)
Type: Family

This bacterial family of proteins has no known function.
Glycosyl hydrolases related to GH101 family, GHL1-GHL3 (GH101-related)
Type: Family

This family of bacterial glycosyl hydrolases is related to CAZy family GH129, and distantly to GH101, and is made up of sub-families GHL1-GHL3 .
Protein of unknown function DUF3112 (DUF3112)
Type: Family

This eukaryotic family of proteins has no known function.
Protein of unknown function DUF3113 (DUF3113)
Type: Family

This entry represents a family of proteins whose function is not currently known.
Protein of unknown function DUF3114 (DUF3114)
Type: Family

Some members in this family of proteins with unknown function are annotated as cytosolic proteins. This cannot be confirmed.
Putative SAM-dependent methyltransferase (Methyltransf_34)
Type: Family

This family of largely fungal proteins are likely to be a methyltransferase. This was determined through multiple motif screening in yeast . Proteins in this family include Mbt6, which is a methyltransferase responsible for the m3U methylations of 25S rRNA in Saccharomyces cerevisiae .
Protein of unknown function DUF3116 (DUF3116)
Type: Family

This family of proteins with unknown function appears to be restricted to Listeriaceae.
Protein of unknown function DUF3117 (DUF3117)
Type: Family

This family of proteins with unknown function appears to be restricted to Actinobacteria.
Putative rhamnosyl transferase (Put_rhamnosyl_transferase)
Type: Family

Most members of this family are uncharacterised, but one is a putative side-chain-rhamnosyl transferase .
Protein of unknown function DUF3119 (DUF3119)
Type: Family

This family of proteins has no known function.
Protein of unknown function DUF3120 (DUF3120)
Type: Family

This family of proteins with unknown function are mostly from Cyanobacteria.
Protein of unknown function DUF3122 (DUF3122)
Type: Family

This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Protein of unknown function DUF3123 (DUF3123)
Type: Family

This eukaryotic family of proteins has no known function.
Protein of unknown function DUF3124 (DUF3124)
Type: Family

This bacterial family of proteins has no known function.
Protein of unknown function DUF3126 (DUF3126)
Type: Family

This family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Protein of unknown function DUF3127 (DUF3127)
Type: Family

This bacterial family of proteins has no known function.
Plasticity-Associated Neural Transcript Short/Early meiotic induction protein 1-like (Pants/Emi1-like)
Type: Family

This entry represents a group of short eukaryotic sequences, including the mouse micropeptide known as the Plasticity-Associated Neural Transcript Short (Pants, also known as UPF0545 protein C22orf39 homolog), which plays a role in synaptic plasticity . The absence of Pants in humans is associated with high risk for schizophrenia .

This entry also includes Early meiotic induction protein 1 from Saccharomyces cerevisiae (Emi1), which is required for transcriptional induction of the early meiotic-specific transcription factor Ime1 , and other plant, fungal and animal uncharacterised proteins. Deletion of Emi1 affects mitochondrial morphology .

This family was previously known as DUF3128.
Egh16-like virulence factor (Egh16-like)
Type: Family

This entry represents a group of fungal proteins, including Egh16 from Erysiphe graminis f.sp. hordei and its homologues . They are found in pathogenic fungi and may play important roles during the early infection stage in fungal pathogens . This entry also includes GAS1/2 from Magnaporthe oryzae, which are appressoria-specific virulence factors required for appressorial penetration in host and lesion development .
Type VII secretion effector, SACOL2603 family (TVIIS_effector_SACOL2603_fam)
Type: Family

Members of this protein family are similar in length and sequence (although remotely) to the WXG100 family of type VII secretion system (T7SS) targets. Phylogenetic profiling shows that members of this family are similarly restricted to species with T7SS, marking this family as a related set of T7SS effectors. Members include SACOL2603 from Staphylococcus aureus subsp. aureus COL. Oddly, members of family

(DUF2580), which appears also to be related, seem not to be tied to T7SS.
Domain of unknown function DUF3131 (DUF3131)
Type: Domain

This entry represents a bacterial domain of unknown function found covering the whole length of the proteins in part of the shorter sequences of this group and associated to

in other members.