SII-SWORD/CoKE huggingface dataset:
N-succinylornithine carbamoyltransferase ArgF'-like (ArgF'-like)
Type: Family

This entry represents a group of N-succinylornithine carbamoyltransferases from bacteria, including ArgF' from Bacteroides fragilis. It catalyses the transfer of the carbamoyl group from carbamoyl phosphate to the δ-amino group of N2-succinyl-L-ornithine to produce N2-succinyl-L-citrulline .

In B. fragilis it is essential for arginine biosynthesis. B. fragilis uses N-succinyl-l-ornithine rather than N-acetyl-l-ornithine for de novo arginine biosynthesis and therefore this pathway in Bacteroides is different from the canonical arginine biosynthetic pathway of most organisms .
N-acetyl-L-citrulline deacetylase ArgE'-like (ACDase_ArgE'-like)
Type: Family

This entry represents a group of proteins mainly from Proteobacteria, including ArgE' from Xanthomonas campestris pv. campestris. ArgE' is involved in arginine biosynthesis. It catalyses the deacetylation of N-acetyl-L-citrulline to produce L-citrulline . Interestingly, it Is also able to catalyse the deacetylation of N-acetylornithine in vitro, with almost equal velocity. However, this reaction may be not relevant in vivo since Xanthomonas does not possess the canonical argF gene and cannot convert ornithine to citrulline via ArgF' .
Racemase Bsr/Lyr (Racemase_Bsr/Lyr)
Type: Family

The short peptides that forms cross-links between glycan chains in the peptidoglycan polymer in bacterial cell walls require d-amino acids (DAA), being d-Alanine and d-Glutamate the most predominant ones. DAA are generated from the l-enantiomers by specific alanine and glutamate racemases. However, diverse bacteria can produce non-canonical DAA (NCDAA) components of the cell wall, that relies on periplasmic broad-spectrum racemases (Bsr) activity. Lysine racemase is another enzyme present in some organisms and catalyses the conversion of l-Lys to d-Lys but it also can use l-Arg as substrate. Together with Bsr they are classified as Group III racemases . These NCDAA are involved in different cellular processes including biofilm stability, sporulation and cell communication and allow pathogenic bacteria to adapt in adverse environments .
tRNA (cytosine(72)-C(5))-methyltransferase (NSUN6)
Type: Family

This entry represents a group of archaeal methyltransferases, including PH1991 from Pyrococcus horikoshii. PH1991 is a S-adenosyl-L-methionine-dependent methyltransferase that specifically methylates the C5 position of cytosine 72 in several tRNAs .
3-dehydroshikimate dehydratase (DSD)
Type: Family

This entry represents a group of bacterial dehydratases, including QuiC1 from Pseudomonas putida. QuiC1 catalyses the conversion of 3-dehydroshikimate to protocatechuate (3,4-dihydroxybenzoate), a common intermediate of quinate and shikimate degradation pathways .
Splicing factor Yju2 (Yju2)
Type: Family

Splicing by the spliceosome involves branching and exon ligation. The branching reaction leads to the formation of the catalytic step I spliceosome (C complex). This entry includes budding yeast Yuj2 and its human homologue, CCDC94. They are part of the C complex . Yju2 is a splicing factor associated with the Prp19-associated complex and acts after Prp2 in promoting the first catalytic reaction of pre-mRNA splicing .
Lipid II isoglutaminyl synthase (glutamine-hydrolyzing) subunit GatD (Lipid_II_synth_GatD)
Type: Family

Amidated peptidoglycan of Gram-positive bacteria is essential for peptidoglycan (PG) cross-linking, playing an important role in homeostasis, antibiotic resistance and cell survival. The bi-enzymatic complex MurT-GatD catalyses the amidation process in PG stem peptides, in which GatD is the glutamine amidotransferase member. GatD metabolises glutamine and provides ammonia to MurT, the ligase that catalises the convertion of D-glutamate residue in Lipid II to D-isoglutamine. Sequence analysis of this subunit from S. aureus is similar to the catalytic domain in CobB/CobQ-like glutamine amidotransferases (GatD) (enzymes involved in cobalamin biosynthesis), being grouped in a new sub-family of glutamine amidotransferases .
Lipid II isoglutaminyl synthase (glutamine-hydrolyzing) subunit MurT (Lipid_II_synth_MurT)
Type: Family

Amidated peptidoglycan of Gram-positive bacteria is essential for peptidoglycan (PG) cross-linking, playing an important role in homeostasis, antibiotic resistance and cell survival. The bi-enzymatic complex MurT-GatD catalyses the amidation process in PG stem peptides, in which MurT is the ligase that catalyzes the ATP-dependent conversion of D-glutamate to D-isoglutamine using the ammonia provided by GatD, resulting in the amidation of the α-carboxyl group of the D-isoglutamate residue in Lipid II. MurT has sequence similarity to substrate-binding domains in Mur ligases .
Tail assembly protein GT (Tail_assembly_GT)
Type: Family

This family represents the tail assembly protein GT, from lambda-like viruses and their prophage.

In bacteriophage lambda, the overlapping open reading frames G and T are expressed by a programmed translational frameshift to produce the tail assembly proteins G and GT . Tail assembly protein GT shares it's N-terminal residues with tail assembly protein G, followed by residues of unique sequence . An analogous frameshift is widely conserved among other dsDNA tailed phages in their corresponding 'G' and 'GT' tail genes even in the absence of detectable sequence homology . The lambda tail assembly protein G and frameshift product GT are produced in a molar ratio of approximately 30:1. The correct molar ratio of these two related proteins, normally determined by the efficiency of the frameshift, is crucial for efficient assembly of functional tails . Although tail assembly proteins G and GT are both required for assembly of functional tails, neither is present in mature tails .
Plasmodium repeat of length 46 (P_repeat_46)
Type: Repeat

This repeat is found in the products of 2 genes in Plasmodium species. It is found in no other organisms.
Protein of unknown function DUF5646 (DUF5646)
Type: Family

This is a family of unknown function. Family members include the archaeal homologues of the bacterial RelB, a toxin-antitoxin system which is activated during amino acid starvation .
Protein of unknown function DUF5647 (DUF5647)
Type: Family

This is a family of unknown function. Family members include the hypothetical protein TTHC002 from Thermus thermophilus. Its has an α-β-α-β(3) structure and forms a dimer with a single β-sheet, folded in a barrel-like shape .
Domain of unknown function DUF5648 (DUF5648)
Type: Domain

This entry represents a three-bladed β-α propeller domain with unknown function. It is often associated with enzymatic domains in bacterial cell surface proteins. Individual blade consist of a three-stranded antiparallel β-sheet and an α-helix packed on it. In some members this helix may have transitioned to a random coil.
Repeats of unknown function DUF5649 (DUF5649)
Type: Repeat

This entry represents a series of potential β-helix repeats found in a variety of putative bacterial adhesin proteins.
Repeat of unknown function DUF5650 (DUF5650)
Type: Repeat

This entry represents a repeat region found in filamentous hemagglutinin proteins from various bacteria. This entry may contain a β helix structure.
Domain of unknown function DUF5651 (DUF5651)
Type: Domain

This entry represents a probable zinc binding domain found at the C terminus of some Firmicute bacteria. The function of these proteins is unknown.
Domain of unknown function DUF5652 (DUF5652)
Type: Domain

This entry represents a protein containing two transmembrane helices. Many of these proteins are found in organisms in the Candidatus phyla radiation.
Family of unknown function DUF5654 (DUF5654)
Type: Family

This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 79 and 98 amino acids in length. The region contains two predicted transmembrane helices. The eukaryotic examples are found in the Foraminiferan Reticulomyxa filosa that contains several proteins with this family.
Domain of unknown function DUF5655 (DUF5655)
Type: Domain

This domain can be found in a family of proteins from bacteria, archaea, eukaryotes and viruses. Proteins containing this domain are typically between 122 and 304 amino acids in length.
Protein of unknown function DUF5656 (DUF5656)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 237 and 274 amino acids in length. These proteins are likely to be integral membrane proteins.
Family of unknown function DUF5657 (DUF5657)
Type: Family

This family of small integral membrane proteins is found in bacteria. Proteins in this family are approximately 80 amino acids in length.
Domain of unknown function DUF5658 (DUF5658)
Type: Domain

This domain can be found in a family of proteins from bacteria, archaea and viruses. Proteins containing this domain are typically between 101 and 135 amino acids in length. There is a completely conserved aspartate and a conserved EXNP motif that may be functionally important.
Domain of unknown function DUF5659 (DUF5659)
Type: Domain

This domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria and archaea.
Domain of unknown function DUF5660 (DUF5660)
Type: Domain

This presumed domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria and fungi, and is approximately 110 amino acids in length.
Protein of unknown function DUF5661 (DUF5661)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria, archaea and viruses. Proteins in this family are typically between 89 and 148 amino acids in length.
Family of unknown function DUF5662 (DUF5662)
Type: 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.
Protein of unknown function DUF5663 (DUF5663)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are typically between 102 and 113 amino acids in length.
Protein of unknown function DUF5665 (DUF5665)
Type: Family

This entry represents a functionally uncharacterised family of integral membrane proteins. This protein family is found in bacteria, and is approximately 60 amino acids in length. There are several conserved glycines in the first transmembrane helix that may be functionally important.
Domain of unknown function DUF5666 (DUF5666)
Type: Domain

This presumed domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria and archaea, including Mi43 from Mycobacterium intracellulare . It is approximately 60 amino acids in length. This domain is likely to adopt an OB-fold based on similarity to other families.
Domain of unknown function DUF5667 (DUF5667)
Type: Domain

This presumed domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria and archaea, and is typically between 95 and 113 amino acids in length.
LiaI-LiaF-like transmembrane region (LiaI-LiaF-like_TM1)
Type: Domain

This entry represents a transmembrane region found in sequences related to LiaI-LiaF proteins. It is composed of two transmembrane helices that are often found in 2 or three copies in a protein. The members of this family are functionally uncharacterised. This domain family is found in bacteria and archaea, and is approximately 40 amino acids in length. This entry is often associated with

a putative adhesive domain that adopts a β-helix fold.
Lmo0937-like (Lmo0937-like)
Type: Family

Members of this family are very small (about 45 amino acids) and highly hydrophobic, containing two transmembrane helices, and have a broad phylogenetic distribution, mainly found in bacteria and a few archaeal species. There is a single completely conserved residue W that may be functionally important. Lmo0937, from the pathogen Listeria monocytogenes, is described as up-regulated when the bacterium is in the mouse spleen, suggesting a role in stress response .
Domain of unknown function DUF5671 (DUF5671)
Type: Domain

This domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria and archaea. These proteins are likely to be integral membrane proteins.
Domain of unknown function DUF5672 (DUF5672)
Type: Domain

This domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria, archaea, eukaryotes and viruses. This entry corresponds to a region of about 200 amino acids in length with multiple conserved motifs. There are two conserved sequence motifs: GAP and NGG. In some proteins this domain is found associated with various glycosyl transferase enzyme domains, suggesting this domain has a related role in glycan biosynthesis.
Domain of unknown function DUF5673 (DUF5673)
Type: Domain

This presumed domain is functionally uncharacterised. Proteins containing this domain can be found in bacteria and archaea, and is approximately 90 amino acids in length. The domain is usually found C-terminal to a pair of transmembrane helices.
Protein of unknown function DUF5674 (DUF5674)
Type: Family

This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria and archaea. Proteins in this family are approximately 110 amino acids in length.
Domain of unknown function DUF5675 (DUF5675)
Type: Domain

This presumed domain is found in bacteria, archaea, alveolata and caudoviruses.
Family of unknown function DUF5677 (DUF5677)
Type: Family

This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 250 and 347 amino acids in length. These proteins contain a conserved RXXXE motif an invariant Histidine that may be functionally important.
Domain of unknown function DUF5678 (DUF5678)
Type: Domain

Proteins containing this presumed domain can be found in bacteria and archaea.
Domain of unknown function DUF5680 (DUF5680)
Type: Domain

Proteins containing this domain can be found in bacteria and archaea. In some of the proteins this domain is associated with an N-terminal HTH domain, suggesting that they are transcriptional regulators. This suggests that this may be a previously unidentified ligand binding domain.
Domain of unknown function DUF5681 (DUF5681)
Type: Domain

Proteins containing this domain can be found in bacteria, archaea and viruses. There is a conserved SGNP sequence motif. There are two completely conserved G residues that may be functionally important.
Family of unknown function DUF5682 (DUF5682)
Type: Family

This is a family of proteins with unknown function, mostly found in bacteria.
Domain of unknown function DUF5683 (DUF5683)
Type: Domain

This is a domain of unknown function found mostly in bacteria.
Family of unknown function DUF5684 (DUF5684)
Type: Family

This is a family of unknown function mostly found in bacteria.
Family of unknown function DUF5685 (DUF5685)
Type: Family

This is a family of proteins with unknown function mostly found in bacteria.
Family of unknown function DUF5686 (DUF5686)
Type: Family

This is a family of proteins of unknown function, mostly from bacteria.
Family of unknown function DUF5687 (DUF5687)
Type: Family

DUF5687 is a family of proteins of unknown function mainly found in bacteria.
Family of unknown function DUF5688 (DUF5688)
Type: Family

DUF5688 is a family of proteins of unknown function found in bacteria.
Domain of unknown function DUF5689 (DUF5689)
Type: Domain

This is a domain of unknown function. It is mostly found in bacteria and can be present in multiple copies.
Family of unknown function DUF5690 (DUF5690)
Type: Family

The function of DUF5690 is not clear.
Family of unknown function DUF5691 (DUF5691)
Type: Family

The function of DUF5691 is not clear.
Protein of unknown function DUF5692 (DUF5692)
Type: Family

The function of DUF5692 is not clear.
Family of unknown function DUF5693 (DUF5693)
Type: Family

The function of DUF5693 is not clear.
Protein of unknown function DUF5694 (DUF5694)
Type: Family

The function of DUF5694 is not clear.
Protein of unknown function DUF5695 (DUF5695)
Type: Family

The function of DUF5695 is not clear.
Protein of unknown function DUF5696 (DUF5696)
Type: Family

The function of DUF5696 is not clear.
Family of unknown function DUF5697 (DUF5697)
Type: Family

Proteins in this entry contain an N-terminal Helix-tun-helix motif and are therefore likely to be transcriptional regulators.
Protein of unknown function DUF5699 (DUF5699)
Type: Family

The function of DUF5699 is not clear.
Putative zinc dependent peptidase DUF5700 (DUF5700)
Type: Family

This entry represents a group of putative zinc dependent peptidases that have the characteristic HEXXH motif.
Protein of unknown function DUF5701 (DUF5701)
Type: Family

This is a family of unknown function mostly found in bacteria.
Protein of unknown function DUF5702 (DUF5702)
Type: Family

This family is mostly found in bacteria.
Domain of unknown function DUF5703 (DUF5703_N)
Type: Domain

This is an N-terminal domain of unknown function mostly found in bacteria.
Protein of unknown function DUF5703 (DUF5703)
Type: Family

Proteins in this entry are mostly found in Actinobacteria.
Domain of unknown function DUF5704 (DUF5704)
Type: Domain

This domain is mainly found in Firmicutes and has a notable number of highly conserved aromatic amino acids.
Pycsar effector protein (PycTM)
Type: Family

Pycsar (pyrimidine cyclase system for antiphage resistance) provides immunity against bacteriophage and consists of a pyrimidine cyclase (PycC), which synthesizes cyclic nucleotides in response to infection and an effector protein. Cyclic nucleotides serve as specific second messenger signals, which activate the adjacent effector, leading to bacterial cell death and abortive phage infection .

This family represents the effector protein from Pycsar system.
Protein of unknown function DUF5707 (DUF5707)
Type: Family

The function of DUF5707 is not clear.
Family of unknown function DUF5708 (DUF5708)
Type: Family

The function of DUF5708 is not clear.
Domain of unknown function DUF5709 (DUF5709)
Type: Domain

The function of this domain is not clear.
Domain of unknown function DUF5710 (DUF5710)
Type: Domain

This is a domain of unknown function which can be found in DNA primases such as TraC .
Protein of unknown function DUF5711 (DUF5711)
Type: Family

This is a family of unknown function mostly found in bacteria and archaea. Some members contain WD repeats.
Mobilization protein BfmA-like (BfmA-like)
Type: Family

This entry represents BfmB from Bacteroides fragilis (

) and similar sequences mainly found in bacteroidetes. BfmB was identified as a mobilisation protein for a pathogenicity island that has partner proteins BfmA (a member of the

) and BfmC . This family was previously known as DUF5712.
Protein of unknown function DUF5713 (DUF5713)
Type: Family

Proteins in this family are mainly found in bacteria.
Domain of unknown function DUF5714 (DUF5714)
Type: Domain

This domain is distantly related to the CGCAxxGCC motif family (

). This domain is found associated with other domains such as the Radical SAM domain and a methyltransferase.
Protein of unknown function DUF5715 (DUF5715)
Type: Family

The function of DUF5715 is not clear.
Domain of unknown function DUF5716 (DUF5716_C)
Type: Domain

This is a C-terminal domain found in bacterial sequences of unknown function.
MBG domain (MBG_3)
Type: Domain

This entry corresponds to an MBG (mirror beta grasp) domain. It is found in a variety of bacterial cell surface proteins.
Wadjet protein JetA (JetA)
Type: Family

This family includes Wadjet protein JetA, a component of anti plasmid transformation system Wadjet type I, composed of JetA, JetB, JetC and JetD. Expression of Wadjet type I in B.subtilis (strain BEST7003) reduces the transformation efficiency of plasmid pHCMC05 .
Domain of unknown function DUF5717, C-terminal (DUF5717_C)
Type: Domain

This domain can be found at the C terminus of a group of uncharacterised proteins from bacteria.
Domain of unknown function DUF5717, N-terminal (DUF5717_N)
Type: Domain

This domain can be found at the N terminus of a group of uncharacterised proteins from bacteria.
Protein of unknown function DUF5718 (DUF5718)
Type: Family

This is a family of unknown function, mostly found in bacteria.
Protein of unknown function DUF5719 (DUF5719)
Type: Family

The function of DUF5719 is not clear.
Domain of unknown function DUF5720 (DUF5720)
Type: Domain

This entry represents a domain of unknown function from proteins mostly found in bacteria.
Protein of unknown function DUF5721 (DUF5721)
Type: Family

This is a family of unknown function, mostly found in Firmicutes.
Domain of unknown function DUF5722 (DUF5722)
Type: Domain

This is a domain of unknown function found in bacteria.
Domain of unknown function DUF5723 (DUF5723)
Type: Domain

This is a domain of unknown function found in bacteria.
Domain of unknown function DUF5724 (DUF5724)
Type: Domain

This is a domain of unknown function found in bacteria.
Domain of unknown function DUF5725 (DUF5725)
Type: Domain

This entry represents a highly conserved domain of unknown function found in Platyhelminthes.
Domain of unknown function DUF5726 (DUF5726)
Type: Domain

This domain is found in various Platyhelminthes, with many of the sequences annotated as being the polyprotein of the transposon Ty3-I Gag-Pol. However, the genomic location of other members suggests that this region is not always found in a transposon. The domain is characterised by a highly conserved DxDxDxCC motif. The function of this domain is currently unknown.
Domain of unknown function DUF5727 (DUF5727)
Type: Domain

This entry represents a conserved domain of unknown function found in Platyhelminthes, closely related to glycosylphosphatidylinositol (GPI)-anchored protein GP50, known as Diagnostic antigen GP50. GP50 is a family of highly expressed antigens exclusive to tapeworms.
Domain of unknown function DUF5728 (DUF5728)
Type: Domain

This is a highly conserved domain of unknown function found in Platyhelminthes, with many of the sequences annotated as being the small conductance calcium-activated potassium channel protein. However, the location suggests that this domain belongs to the intracellular amino terminus of these transmembrane proteins, immediately next to the calcium-activated SK potassium channel.
Domain of unknown function DUF5729 (DUF5729)
Type: Domain

This is a highly conserved domain of unknown function found in Platyhelminthes, with many of the sequences annotated as being the small conductance calcium-activated potassium channel protein. However, the location suggests that this domain belongs to the intracellular amino terminus of these transmembrane proteins, near the calcium-activated SK potassium channel.
Domain of unknown function DUF5730 (DUF5730)
Type: Domain

This entry represents a highly conserved domain of unknown function found in Platyhelminthes, in which the first 21 residues correspond to a transmembrane domain.
Domain of unknown function DUF5731 (DUF5731)
Type: Domain

This entry represents a highly conserved domain of unknown function found in various Platyhelminthes.
Domain of unknown function DUF5732 (DUF5732)
Type: Domain

Proteins containing this domain can be found in various Platyhelminthes, with many of the sequences annotated as being the STARP-like antigen. This highly conserved domain is located next to the basic helix-loop-helix motif found in this antigen. The function of this domain is currently unknown.
Domain of unknown function DUF5733 (DUF5733)
Type: Domain

This entry represents a highly conserved domain of unknown function found in various Platyhelminthes.
Domain of unknown function DUF5734 (DUF5734)
Type: Domain

This is a conserved domain found in various proteins from Platyhelminthes. The function of this domain is still unknown.
Domain of unknown function DUF5735 (DUF5735)
Type: Domain

This entry represents a highly conserved domain of unknown function found in various Platyhelminthes.