SII-SWORD/CoKE huggingface dataset:
Pfam PF21023: DENR, N-terminal (domain)
The density regulated protein (DENR) forms a stable heterodimer with malignant T-cell-amplified sequence 1 (MCT-1) which interacts with the 40S ribosomal subunit during initiation, reinitiation and recycling stages, playing a role in regulation of non-canonical translation initiation and ribosomal recycling. This entry represents the N-terminal domain of DENR, containing a zinc ion-binding site, which preserves the structure of DENR's MCT-1-binding interface that is essential for the dimerization. DENR likely coordinates the Zn ion mainly via three rather than four cysteines.
Pfam PF16205: Ribosomal_S17 N-terminal (family)
This short N-terminal region is found in a number of higher eukaryotic ribosomal subunit 17 proteins.
Pfam PF02779: Transketolase, pyrimidine binding domain (domain)
This family includes transketolase enzymes, pyruvate dehydrogenases, and branched chain alpha-keto acid decarboxylases.
Pfam PF22245: Tailspike protein, C-terminal domain (domain)
This entry represents the Tailspike Concanavalin-like C-terminal domain, also known as domain 6 (d6) of the tailspike receptor-binding protein (RBP) gp63.1 of bacteriophage G7C. This domain is structurally similar to carbohydrate-binding domains and is putatively involved in  substrate binding. This beta-sandwich fold consists of two anti-parallel beta-sheets, each containing six strands.
Pfam PF07967: NuBaID N-terminal domain (aka zf-C3HC) (domain)
This entry represents the N-terminal zinc finger domain (previously known as zf-C3HC) of Zinc finger C3HC-type protein 1 (ZC3HC1, also known as Nuclear-interacting partner of ALK (NIPA)), pre-mRNA leakage protein 39 (Pml39), mRNA export factor Rsm1 and related eukaryotic proteins. Pml39 and Rsm1 are ZC3HC1 homologues from S. cerevisiae and S. pombe, respectively. This domain contains three highly conserved cysteine residues, two of which evolutionarily invariant, followed by an invariant pair of histidine and cysteine residues. This zinc finger domain is often found repeated and the second repeat domain can harbour a large insert located after the first three cysteine residues. Both domains coordinate zinc ion via two cysteines and the histidine-cysteine pair, in a mode similar to the presumably related BIR domains. Both N- (this entry) and C-terminal zinc finger domains were found to be essential for binding TPR/Mlp1 and therefore denoted as the nuclear basket-interaction domain (NuBaID), representing an evolutionary conserved integral functional unit.
Pfam PF15317: Cardiac transcription factor regulator, Developmental protein (family)
The family of proteins are cardiac transcription regulators, named Lbh, short for Limb, bud and heart. They regulate embryological development in the heart.  More specifically, in humans, they may act as transcriptional activators in MAPK signaling pathway to mediate cellular functions. This family of proteins is found in eukaryotes. Proteins in this family are typically between 92 and 116 amino acids in length.
Pfam PF03748: Flagellar basal body-associated protein FliL (family)
The FliL protein controls the rotational direction of the flagella during chemotaxis. FliL is a cytoplasmic membrane protein associated with the basal body. This protein is a component of the flagellar motor and it is known to enhance the motor performance under high-load conditions in some bacteria. The periplasmic domain of FliL (Flil_C) share significant structural similarity with stomatin/prohibitin/flotillin/HflK/C domains of scaffolding proteins, suggesting that FliL acts as a scaffold. The Flil_C domain is capable of forming a ring assembly with an inner diameter that is comparable in size to the stator unit.
Pfam PF03425: Carbohydrate binding domain (family 11) (domain)
This entry represents CBM11, which binds both beta-1,4-glucan and beta-1,3-1,4-mixed linked glucans.
A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins.

CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose . However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology.

Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see .
Wikipedia: In molecular biology, a carbohydrate-binding module (CBM) is a protein domain found in carbohydrate-active enzymes. The majority of these domains have carbohydrate-binding activity. Some of these domains are found on cellulosomal scaffoldin proteins. CBMs were previously known as cellulose-binding domains. CBMs are classified into numerous families, based on amino acid sequence similarity. There are currently 64 families of CBM in the CAZy database.
Pfam PF01537: Herpesvirus glycoprotein D/GG/GX domain (domain)
This domain is found in several Herpes viruses glycoproteins. This is a family includes glycoprotein-D (gD or gIV) which is common to herpes simplex virus types 1 and 2, as well as equine herpes, bovine herpes and Marek's disease virus. Glycoprotein-D has been found on the viral envelope and the plasma membrane of infected cells. and gD immunisation can produce an immune response to bovine herpes virus (BHV-1). This response is stronger than that of the other major glycoproteins gB (gI) and gC (gIII) in BHV-1.  Glycoprotein G (gG)is one of the seven external glycoproteins of HSV1 and HSV2. This family also contains the glycoprotein GX, (gX), initially identified in Pseudorabies virus.
Pfam PF03741: Integral membrane protein TerC family (family)
This family contains a number of integral membrane proteins that also contains the TerC protein. TerC has been implicated in resistance to tellurium. This protein may be involved in efflux of tellurium ions. The tellurite-resistant Escherichia coli strain KL53 was found during testing of the group of clinical isolates for antibiotics and heavy metal ion resistance. Determinant of the tellurite resistance of the strain was located on a large conjugative plasmid. Analyses showed, the genes terB, terC, terD and terE are essential for conservation of the resistance. The members of the family contain a number of conserved aspartates that could be involved in binding to metal ions.
Pfam PF11553: Protein of unknown function (DUF3231) (family)
This bacterial family of proteins has no known function.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF02389: Cornifin (SPRR) family (disordered)
SPRR genes (formerly SPR) encode a novel class of polypeptides (small proline rich proteins) that are strongly induced during differentiation of human epidermal keratinocytes in vitro and in vivo. The most characteristic feature of the SPRR gene family resides in the structure of the central segments of the encoded polypeptides that are built up from tandemly repeated units of either eight (SPRR1 and SPRR3) or nine (SPRR2) amino acids with the general consensus XKXPEPXX where X is any amino acid. In order to avoid bacterial contamination due to the high polar-nature of the HMM the threshold has been set very high.
Pfam PF17771: ADAMTS cysteine-rich domain 2 (domain)
This cysteine rich domain is found in a variety of ADAMTS peptidases (A Disintegrin and Metalloproteinase with Thrombospondin Motifs) which is closely related to the ADAM family ([pfam:PF08516]). Members of the ADAM-TS family have been implicated in a range of diseases. For instance, members of this family have been found to participate directly in processes in the central nervous system (CNS) such as the regulation of brain plasticity.
Pfam PF06690: FeGP cofactor biosynthesis protein, methyltransferase HcgC (family)
The iron guanylylpyridinol (FeGP) cofactor biosynthesis enzymes are encoded in a cluster of at least seven conserved genes (hcgA-G). This family represents the (SAM)-dependent methyltransferase HgcC, which covalently attaches the methyl group at the 3-position of the pyridinol ring. It is predominantly found as a monomer in solution, composed of a Rossmann-like coenzyme-binding-domain consisting of six parallel and one peripheral antiparallel strand flanked by six alpha-helices and a smaller alpha/beta domain.
Pfam PF11636: Troponin I residues 1-32 (disordered)
This family of proteins represents the cardiac N-extension of troponin I. This region of the protein (1-32) interacts with the N-lobe of cTnC and modulates myofilament calcium(2) sensitivity.
Pfam PF21437: CbiG-like, linker domain (domain)
This domain is found once in the putative Cobalamin biosynthesis protein G homolog from the archaea Saccharolobus solfataricus (CbiG-like), C-terminal to [pfam:PF11760] and N-terminal to [pfam:PF01890]. It is also found several times in uncharacterised proteins from lower eukaryotes, some of which also contain ankyrin  repeats ([pfam:PF00023], [pfam:PF12796], [pfam:PF13637], [pfam:PF13857], [pfam:PF13606]).
Pfam PF19650: Family of unknown function (DUF6153) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0001435) is described by MIBiG as an example of the following biosynthetic classes, polyketide and NRP (non-ribosomal  peptide). It includes a member from the ikarugamycin biosynthetic  gene cluster from Streptomyces sp. ZJ306 and appears to be  predominantly found in Actinobacteria.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF19047: HOOK domain (domain)
This domain is found at the N-terminus of HOOK proteins.
Pfam PF00925: GTP cyclohydrolase II (family)
GTP cyclohydrolase II catalyses the first committed step in the biosynthesis of riboflavin.
Pfam PF14537: Cytochrome c3 (family)
Flavocytochrome C3 (Fcc3) enzymes from a number of Shewanella species, including Shewanella frigidimarina (strain NCIMB 400), have respiratory fumarate reductase activity, which enables the bacteria to respire anaerobically with fumarate as a terminal electron acceptor. Flavocytochrome C3 in S. frigidimarina is a soluble, single chain tetrahaem enzyme found in the periplasm, making it distinct from other bacterial fumarate reductases (IPR010960), which are membrane-bound, multi-subunit enzymes, even though their function is analogous.

Shewanella Fcc3 is composed of three domains: an N-terminal tetrahaem cytochrome domain, a flavin domain and a clamp domain. The cytochrome domain can also occur on its own in some tetrahaem cytochromes implicated in iron oxidation. This entry represents the cytochrome domain, which has a different arrangement of the polypeptide chain in comparison to classical tetra-haem cytochrome C3 .
Wikipedia: Cytochromes c  cytochromes, or heme-containing proteins, that have heme C covalently attached to the peptide backbone via one or two thioether bonds. These bonds are in most cases part of a specific Cys-X-X-Cys-His (CXXCH) binding motif, where X denotes a miscellaneous amino acid. Two thioether bonds of cysteine residues bind to the vinyl sidechains of heme, and the histidine residue coordinates one axial binding site of the heme iron. Less common binding motifs can include a single thioether linkage, a lysine or a methionine instead of the axial histidine or a CXnCH binding motif with n&gt;2. The second axial site of the iron can be coordinated by amino acids of the protein, substrate molecules or water. Cytochromes c possess a wide range of properties and function as electron transfer proteins or catalyse chemical reactions involving redox processes. A prominent member of this family is mitochondrial cytochrome c.
Pfam PF15186: Testis-expressed sequence 13 protein family (family)
The function of this family of proteins has not, as yet, been determined. However, members are thought to be encoded for by spermatogonially-expressed, germ-cell-specific genes. This family of proteins is found in eukaryotes. Proteins in this family are typically between 177 and 384 amino acids in length. There are two conserved sequence motifs: FIN and LAL.
Pfam PF15500: Putative RNase-like toxin, toxin_1 (family)
A predicted RNase toxin found in bacterial polymorphic toxin systems.  The toxin possesses an alpha+beta fold and conserved cysteine, histidine and glutamate residues that is usually exported by the Photorhabdus virulence cassette (PVC)-type export system.
Pfam PF05653: Magnesium transporter NIPA (family)
NIPA (nonimprinted in Prader-Willi/Angelman syndrome) is a family of integral membrane proteins which function as magnesium transporters.
Pfam PF14488: Domain of unknown function (DUF4434) (domain)
This family has a TIM-barrel structure and appears to be related to a variety of glycosyl hydrolase enzymes.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF13046: Protein of unknown function (DUF3906) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 70 amino acids in length. There is a conserved EKK sequence motif.
Pfam PF05787: Alkaline phosphatase PhoX (repeat)
This family consists of proteins predominantly found in bacteria, including Alkaline phosphatase PhoX from Pseudomonas fluorescens ([swissprot:Q3K5N8]), a phosphomonoesterase with no phosphodiesterase activity. This protein adopts a six-bladed beta-propeller fold, with the active site located at the bottom of the cavity at the centre of the propeller.
Pfam PF10698: Protein of unknown function (DUF2505) (family)
Members of this family are all Actinobacteria. The function is not known.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF02334: Replication terminator protein (domain)
The bacterial replication terminator protein (RTP) plays a role in  the termination of DNA replication by impeding replication fork movement. Two RTP dimers bind to the two inverted repeat regions at the termination site.
Pfam PF24753: Domain of unknown function (DUF7698) (domain)
This entry represents a domain from uncharacterised proteins found mainly in Firmicutes. It is predicted to adopt a globular structure consisting of a curved beta-sheet and alpha-helices packed on one side of it. It contains a number of conserved aromatic hydrophobic residues, some of which are predicted to be solvent-exposed.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF14477: Mso1, membrane-polarising domain (domain)
Mso1p is a component of the secretory vesicle docking complex whose function is closely associated with that of Sec1p. It is a small hydrophilic protein that is enriched in the microsomal membrane fraction. The yeast Sec1p protein functions in the docking of secretory transport vesicles to the plasma membrane. Mso1p and Sec1p interact at sites of exocytosis and the Mso1p-Sec1p interaction site depends on a functional Rab GTPase Sec4p and its GEF Sec2p. This C-terminal region of Mso1 assists in targeting Sec1 to the sites of polarised membrane transport, the SNARES and Sec4.
Pfam PF01151: GNS1/SUR4 family (family)
Members of this family are involved in long chain fatty acid elongation systems that produce the 26-carbon precursors for ceramide and  sphingolipid synthesis.  Predicted to be integral membrane proteins, in eukaryotes they are probably located on the endoplasmic reticulum.   Yeast ELO3 ([swissprot:P40319]) affects plasma membrane H+-ATPase activity, and may act on a glucose-signaling pathway that controls the expression of several genes that are transcriptionally regulated by glucose such as PMA1.
Pfam PF07038: Circovirus 2, anti-apoptotic ORF4 (family)
This family represents the anti-apoptotic ORF4 protein from Circovirus 2, which antagonises host cell apoptosis by interacting with host ferritin heavy chain (FHC). This protein physically binds host FHC, resulting in the reduction of FHC protein levels in host cells. The reduction of FHC concentration further inhibits the accumulation of reactive oxygen in host cells, leading to reduced apoptosis.
Pfam PF17859: Pelovaterin (domain)
The pelovaterin peptide is a major intracrystalline peptide found in turtle eggshell. The global fold of pelovaterin is similar to that of human beta-defensins. Pelovaterin exhibits strong antimicrobial activity against two pathogenic gram-negative bacteria, Pseudomonas aeruginosa and Proteus vulgaris.
Pfam PF13726: Na+-H+ antiporter family (family)
This family includes integral membrane proteins, some of which are NA+-H+ antiporters.
Pfam PF00970: Oxidoreductase FAD-binding domain (domain)
These sequences represent the FAD-binding domain found in NADH:cytochrome b5 reductases and nitrate reductases.
Wikipedia: The oxidoreductase FAD-binding domain  is an evolutionary conserved protein domain. To date, the 3D-structures of the flavoprotein domain of Zea mays nitrate reductase and of pig NADH:cytochrome b5 reductase have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).
Pfam PF24628: Repeat of unknown function (DUF7627) (repeat)
This entry represents a domain found in the uncharacterised protein B0303.14 from C.elegans and related sequences from nematodes.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF18485: Glutathione S-transferase, N-terminal domain (domain)
This is the N-terminal (GST-N) domain containing a thioredoxin fold. This domain found in methionyl-tRNA synthetase (MRS), a multi-tRNA synthetase complex (MSC) component.
Wikipedia: Glutathione S-transferases (GSTs), previously known as ligandins, are a family of eukaryotic and prokaryotic phase II metabolic isozymes best known for their ability to catalyze the conjugation of the reduced form of glutathione (GSH) to xenobiotic substrates for the purpose of detoxification. The GST family consists of three superfamilies: the cytosolic, mitochondrial, and microsomal—also known as MAPEG—proteins. Members of the GST superfamily are extremely diverse in amino acid sequence, and a large fraction of the sequences deposited in public databases are of unknown function. The Enzyme Function Initiative (EFI) is using GSTs as a model superfamily to identify new GST functions.
Pfam PF24173: TTI1 N-terminal TPR domain (repeat)
This entry represents the TPR domain found at the N-terminal of TELO2-interacting protein 1 homologue (TTI1) from animals and yeast. TTI1 binds to TELO2 and TTI2 proteins to form the TTT complex, which plays a role in the assembly and stability of all phosphatidylinositol 3-kinase-related protein kinases (PIKKs), pivotal proteins in various pathways related to cell metabolism, proliferation and differentiation. This domain interacts with the FAT domain of the PIKK ATM.
Pfam PF20200: Family of unknown function (DUF6562) (family)
This family of proteins is functionally uncharacterised. This family of proteins is found in Bacteroidetes. Proteins in this family are typically between 340 and 430 amino acids in length and have the conserved motifs WAD, RP and TxxG. Some members are hypothetical Fimbrillin-A associated anchor protein Mfa1/Mfa2 and related to [pfam:PF08842].
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.
Pfam PF08218: Citrate lyase ligase C-terminal domain (domain)
This family is composed of the C-terminal domain of citrate lyase ligase [ec:6.2.1.22].
Pfam PF12540: Protein of unknown function (DUF3736) (family)
This domain family is found in eukaryotes, and is typically between 135 and 160 amino acids in length.
Wikipedia: A domain of unknown function (DUF) is a protein domain that has no characterised function. These families have been collected together in the Pfam database using the prefix DUF followed by a number, with examples being DUF2992 and DUF1220. As of 2019, there are almost 4,000 DUF families within the Pfam database representing over 22% of known families. Some DUFs are not named using the nomenclature due to popular usage but are nevertheless DUFs.