SII-SWORD/CoKE huggingface dataset:
Pfam PF08175: Small acid-soluble spore protein O family (family)
This family consists of the small acid-soluble spore proteins (SASP) O type (sspO). SspO (originally cotK) are unique to the spores of Bacillus subtilis and are expressed only in the forespore compartment of sporulating cells of this organism. The sspO is the first gene in a likely operon with sspP and transcription of this gene is primarily by RNA polymerase with the forespore-specific sigma factor, sigma-G. Mutation deleting sspO causes the loss of the SspO from the forespore but had no discernible effect on sporulation, spore properties or spore germination.
Pfam PF06007: Phosphonate metabolism protein PhnJ (family)
This family consists of several bacterial phosphonate metabolism (PhnJ) sequences. The exact role that PhnJ plays in phosphonate utilisation is unknown.
Pfam PF07817: GLE1-like protein (repeat)
The members of this family are sequences that are similar to the human protein GLE1 ([swissprot:O75458]). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm.
Pfam PF20584: Family of unknown function (DUF6787) (family)
This family of proteins found in bacteria is functionally uncharacterised and is approximately 100 amino acids in length. Some members of this family are putative diacylglyceryl transferases.
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 PF21166: LSM12, LSM domain (domain)
This is the LSM domain from LSM12, which binds Nicotinic acid adenine dinucleotide phosphate (NAADP) and mediates association with the endolysosomaltwo-pore channel. LSM12 confers NAADP sensitivity to the TPCs by acting as TPC accessory protein necessary for NAADP-evoked Ca2 release. This proteins consist of an N-terminal LSM domain and an anticodon-binding domain (AD, [pfam:PF09793]) at the C terminus.
Pfam PF16858: Condensin II complex subunit CAP-H2 or CNDH2, C-terminal wHTH domain (domain)
This entry represents a C-terminal winged Helix-Turn-Helix domain.  CNDH2_C is the C-terminal domain of the H2 subunit of the condensin II complex, found in eukaryotes but not fungi. Eukaryotes carry at least two condensin complexes, I and II, each made up of five subunits.  The functions of the two complexes are collaborative but non-overlapping. CI appears to be functional in G2 phase in the cytoplasm beginning the process of chromosomal lateral compaction while the CII are concentrated in the nucleus, possibly to counteract the activity of cohesion at this stage. In prophase, CII contributes to axial shortening of chromatids while CI continues to bring about lateral chromatid compaction, during which time the sister chromatids are joined centrally by cohesins. There appears to be just one condensin complex in fungi.  CI and CII each contain SMC2 and SMC4 (structural maintenance of chromosomes) subunits, then CI has non-SMC CAP-D2 (CND1), CAP-G (CND3), and CAP-H (CND2). CII has, in addition to the two SMCs, CAP-D3, CAPG2 and CAP-H2.  All four of the CAP-D and CAP-G subunits have degenerate HEAT repeats, whereas the CAP-H are kleisins or SMC-interacting proteins (ie they bind directly to the SMC subunits in the complex).  The SMC molecules are each long with a small hinge-like knob at the free end of a longish strand, articulating with each other at the hinge. Each strand ends in a knob-like head that binds to one or other end of the CAP-H subunit.  The HEAT-repeat containing D and G subunits bind side-by-side between the ends of the H subunit. Activity of the various parts of the complex seem to be triggered by extensive phosphorylations, eg, entry of the complex, in Sch.pombe, into the nucleus during mitosis is promoted by Cdk1 phosphorylation of SMC4/Cut3; and it has been shown that Cdk1 phosphorylates CAP-D3 at Thr1415 in He-La cells thus promoting early stage chromosomal condensation by CII.
Pfam PF24957: Domain of unknown function (DUF7764) (domain)
This domain is found in uncharacterised bacterial proteins.
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 PF05746: DALR anticodon binding domain (domain)
This all alpha helical domain is the anticodon binding domain in Arginyl and glycyl tRNA synthetase. This domain is known as the DALR domain after characteristic  conserved amino acids.
Wikipedia: An aminoacyl-tRNA synthetase, also called tRNA-ligase, is an enzyme that attaches the appropriate amino acid onto its corresponding tRNA. It does so by catalyzing the transesterification of a specific cognate amino acid or its precursor to one of all its compatible cognate tRNAs to form an aminoacyl-tRNA. In humans, the 20 different types of aa-tRNA are made by the 20 different aminoacyl-tRNA synthetases, one for each amino acid of the genetic code.
Pfam PF06435: Repeat of unknown function (DUF1079) (repeat)
This family consists of several repeats of 31 residues in length and seems to be exclusive to Moraxella catarrhalis UspA proteins. The UspA1 and UspA2 proteins of Moraxella catarrhalis are structurally related and are exposed on the bacterial cell surface where can function adhesins. This family is commonly found with the [pfam:PF03895] family.
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 PF10043: Predicted periplasmic lipoprotein (DUF2279) (family)
This domain, found in various hypothetical bacterial 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 PF04509: CheC-like family (domain)
The restoration of pre-stimulus levels of the chemotactic response regulator, CheY-P, is important for allowing bacteria to respond to new environmental stimuli.  The members of this family, CheC, CheX, CheA and FliY are CheY-P phosphatase. CheC appears to be primarily involved in restoring normal CheY-P levels, whereas FliY seems to act on CheY-P constitutively. CheD enhances the activity of CheC 5-fold, which is normally relatively low.  In some cases, the region represented by this entry is present as multiple copies.
Pfam PF17837: 4'-phosphopantetheinyl transferase N-terminal domain (domain)
This entry represents the N-terminal domain from 4'- phosphopantetheinyl transferase enzymes.  This domain is structurally related to the [pfam:PF01648] domain with which it forms a pseudodimeric arrangement.
Pfam PF16853: Cell division control protein 13 N-terminus (domain)
This domain is found at the N-terminus of fungal cell division control protein 13 (CDC13). It has an OB type fold. It is involved in dimerisation of CDC13 and in interaction of CDC13 with the catalytic subunit of DNA polymerase alpha, Pol1.
Pfam PF09696: Ctf8 (family)
Ctf8 (chromosome transmissions fidelity 8) is a component of the Ctf18 RFC-like complex which is a DNA clamp loader involved in sister chromatid cohesion.
Pfam PF04753: Coronavirus non-structural protein NS12.7 family (family)
This entry corresponds to a non-structural protein found in some beta coronaviruses. It is known as the NS12.7 family after its predicted molecular weight. The function of this protein is unknown.
Pfam PF10636: Hemin uptake protein hemP (family)
This is a bacterial family of proteins that are involved in the uptake of the iron source hemin.
Pfam PF10023: Putative aminopeptidase (family)
This family of bacterial proteins has a conserved HEXXH motif, suggesting that members are putative peptidases of zincin fold.
Pfam PF15797: Domain of unknown function (DUF4706) (family)
This domain family is found in eukaryotes, and is approximately 110 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.
Pfam PF00434: Glycoprotein VP7 (family)
Glycoprotein VP7, also known as outer shell glycoprotein, is a serotype-specific antigen, and is the major neutralisation antigen. It is found in the dsRNA rotaviruses.
Pfam PF15925: SOSS complex subunit C (family)
SOSS complex subunit C is a component of the SOSS complex, a single-stranded DNA binding complex involved in genomic stability, double-stranded break repair and ataxia telangiectasia-mutated-dependent signaling pathways.
Pfam PF23855: Family of unknown function (DUF7218) (family)
This entry represents a small conserved sequence region found in a variety of largely mycobacterial phage proteins as well as bacterial proteins. It is often found N-terminal to [pfam:PF07498].
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 PF19315: Mesaconyl-CoA hydratase (family)
UniProt:G0HQ35 (HAH_1340) has been characterized as a mesaconyl-CoA hydratase. This enzyme belongs to the HotDog superfamily and contains two HotDog domains. This enzyme is most closely related to [pfam:PF01575].
Pfam PF11743: Protein of unknown function (DUF3301) (family)
This family is conserved in Proteobacteria, but 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 PF08450: SMP-30/Gluconolactonase/LRE-like region (repeat)
This family describes a region that is found in proteins expressed by a variety of eukaryotic and prokaryotic species. These proteins include various enzymes, such as senescence marker protein 30 (SMP-30, [swissprot:Q15493]), gluconolactonase ([swissprot:Q01578]) and luciferin-regenerating enzyme (LRE, [swissprot:Q86DU5]). SMP-30 is known to hydrolyse diisopropyl phosphorofluoridate in the liver, and has been noted as having sequence similarity, in the region described in this family, with PON1 ([swissprot:P52430]) and LRE.
Pfam PF14976: Yippee homolog 2 zinc finger protein (family)
This entry represents a family of proteins (previously known as FAM72) that is distantly related to and named after the drosophila Yippee, a zinc-binding protein. In contrast to the other Yippee-like proteins, this family of proteins possesses some distinct features such as the presence of a second putative zinc binding site that is unique to them. The constituent zinc coordinating residues of this second site are invariant within the family suggesting that this is likely a genuine zinc binding site. This family of proteins is found in eukaryotes.
Pfam PF20631: Coronavirus Nonstructural protein 13, 1B domain (domain)
Helicase nonstructural protein 13 (NSP13) is encoded by the replicase polyprotein 1a/ab of coronaviruses and released after a proteolytic process. It plays a critical role catalysing the unwinding of duplex oligonucleotides into single strands in an NTP-dependent manner. It is a multidomain protein consisting of a N-terminal zinc-binding domain (ZBD), a stalk domain that connects the ZBD with the 1B domain and the helicase domain (that contains two RecA1 and RecA2 domains). ZBD, stalk and 1B domains are unique to nidovirus helicases. NSP13 adopts a triangular pyramid shape in which the two RecA1 and A2 and 1B domains form the triangular base while N-terminal ZBD and stalk domains are arranged at the apex of the pyramid. Recently, it has been reported that SARS-CoV-2 NSP13 as an interferon antagonist. This is 1B domain of NSP13, which has a regulatory role modulating the nucleic acid substrate binding.
Pfam PF06815: Reverse transcriptase connection domain (domain)
This domain is known as the connection domain. This domain lies between the thumb and palm domains.
Pfam PF09961: Uncharacterized protein conserved in bacteria (DUF2195) (family)
This domain, found in various hypothetical bacterial 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 PF04081: DNA polymerase delta, subunit 4 (family)
DNA polymerase delta (Pol delta) is responsible for effective DNA replication, playing a key role in the elongation of both the leading and the lagging strands of DNA and the maturation of Okazaki fragments . It consists of four subunits: the catalytic and largest subunit p125, p50 that interacts with p125 to form the core enzyme, p68 which interacts with p50, and a fourth subunit, p12, that bridges p125 and p50, stabilising its interaction .
This entry represents the p12 subunit (also called subunit 4), which increases the rate of DNA synthesis and decreases fidelity by regulating POLD1 polymerase and proofreading 3' to 5' exonuclease activity in the Pol delta4 tetramer complex . p12 is PCNA-binding protein, as it contains a N-terminal PCNA-binding motif. Under conditions of DNA replication stress, it is required for the repair of broken replication forks through break-induced replication (BIR), a mechanism that may induce segmental genomic duplications of up to 200 kb . This subunit is involved in Pol-delta4 translesion synthesis (TLS) of templates carrying O6-methylguanine or abasic sites . p12 plays a major role in Pol delta4 catalytic functions while its degradation is required for the conversion of Pol delta4 to Pol delta3 in the cellular response to DNA damage, as Pol delta3 has an enhanced proofreading activity .
Pfam PF19386: Family of unknown function (DUF5961) (family)
This entry represents a member of a biosynthetic gene cluster (BGC). This BGC (BGC0000573) is described by MIBiG as an example of the following biosynthetic class, RiPP (ribosomally synthesised and post-translationally modified peptide).
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 PF18779: Capping Ribonuclease inhibitor Leucine Rich Repeat (repeat)
Leucine-rich repeats are composed of a beta-alpha unit. This repeat unit is found as capping unit (N- or C- terminal of the repeat region) of Ribonuclease Inhibitors.
Pfam PF02972: Phycoerythrin, alpha/beta chain (family)
This family represents the non-globular alpha and beta chain components of phycoerythrin.  The structure is a long beta-hairpin and a single alpha-helix.
Wikipedia: Phycoerythrin (PE) is a red protein-pigment complex from the light-harvesting phycobiliprotein family, present in cyanobacteria, red algae and cryptophytes, accessory to the main chlorophyll pigments responsible for photosynthesis.The red pigment is due to the prosthetic group, phycoerythrobilin, which gives phycoerythrin its red color.
Pfam PF09463: Opy2 protein (family)
Opy2p acts as a membrane anchor in the HOG signalling pathway.
Pfam PF12874: Zinc-finger of C2H2 type (domain)
This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding.
Pfam PF10774: Domain of unknown function (DUF4226) (domain)
This family of mycobacterial proteins are uncharacterised. This family has partial similarity to EspA related proteins.
Pfam PF16861: Carbamoyltransferase C-terminus (domain)
This domain is found in NodU from Rhizobium, CmcH from Nocardia lactamdurans and the bifunctional carbamoyltransferase TobZ from Streptoalloteichus tenebrarius. NodU a Rhizobium nodulation protein involved in the synthesis of nodulation factors has 6-O-carbamoyltransferase-like activity.  CmcH is involved in cephamycin (antibiotic) biosynthesis and has 3-hydroxymethylcephem carbamoyltransferase activity, [ec:2.1.3.7] catalysing the reaction: Carbamoyl phosphate + 3-hydroxymethylceph-3-EM-4-carboxylate  phosphate + 3-carbamoyloxymethylcephem. TobZ functions as an ATP carbamoyltransferase and tobramycin carbamoyltransferase. These proteins contain two domains, this is the smaller, C-terminal, domain.
Pfam PF15344: FAM217 family (family)
This family of proteins is found in eukaryotes. Proteins in this family are typically between 329 and 507 amino acids in length. There is a conserved YPDFLP sequence motif.
Pfam PF12944: Hepatitis A virus viral protein VP (domain)
This is a family of the viral protein found in hepatitis A viruses. HAV is unique among picornaviruses in targeting the liver.
Pfam PF15279: Sine oculis-binding protein (disordered)
SOBP is associated with syndromic and nonsyndromic intellectual disability. It carries a zinc-finger of the zf-C2H2 type at the N-terminus, and a highly characteristic C-terminal PhPhPhPhPhPh motif. The deduced 873-amino acid protein contains an N-terminal nuclear localisation signal (NLS), followed by 2 FCS-type zinc finger motifs, a proline-rich region (PR1), a putative RNA-binding motif region, and a C-terminal NLS embedded in a second proline-rich motif.  SOBP is expressed in various human tissues, including developing mouse brain at embryonic day 14. In postnatal and adult mouse brain SOBP is expressed in all neurons, with intense staining in the limbic system. Highest expression is in layer V cortical neurons, hippocampus, pyriform cortex, dorsomedial nucleus of thalamus, amygdala, and hypothalamus. Postnatal expression of SOBP in the limbic system corresponds to a time of active synaptogenesis. the family is also referred to as Jackson circler, JXC1. In seven affected siblings from a consanguineous Israeli Arab family with mental retardation, anterior maxillary protrusion, and strabismus mutations were found in this protein.
Pfam PF16819: Domain of unknown function (DUF5074) (repeat)
This family of proteins from Bacteroidetes, is found with a PKD domain at the N-terminus. Several members are annotated as putative quinonprotein alcohol dehydrogenase-like proteins but this could not be confirmed. This entry represents a beta propeller like domain.
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 PF13093: Kinetochore complex Fta4 of Sim4 subunit, or CENP-50 (family)
Fission yeast has three kinetochore protein complexes. Two complexes, Sim4 and Ndc80-MIND-Spc7 (NMS), are constitutive components, whereas the third complex, DASH, is transiently associated with kinetochores only in mitosis and is required for precise chromosome segregation. The Sim4 complex functions as a loading dock for the DASH complex. Sim4 consists of a number of different proteins including Ftas 1-7 and Dad1.
Pfam PF11732: Transcription- and export-related complex subunit (family)
The THO/TREX complex is the transcription- and export-related complex associated with spliceosomes that preferentially deal with spliced mRNAs as opposed to unspliced mRNAs. Thoc2 plays a role in RNA polymerase II (RNA pol II)-dependent transcription and is required for the stability of DNA repeats. In humans, the TRE complex is comprised of the exon-junction-associated proteins Aly/REF and UAP56 together with the THO proteins THOC1 (hHpr1/p84), Thoc2 (hRlr1), THOC3 (hTex1), THOC5 (fSAP79), THOC6 (fSAP35), and THOC7 (fSAP24). Although much evidence indicates that the function of the TREX complex as an adaptor between the mRNA and components of the export machinery is conserved among eukaryotes, in Drosophila the majority of mRNAs can be exported from the nucleus independently of the THO complex.
Pfam PF23837: Family of unknown function (DUF7207) (family)
This entry represents an uncharacterized protein found in various bacteriophages that infect cyanobacteria and other bacterial hosts. The protein ranges in length from approximately 75 to 136 amino acids.
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 PF05267: Protein of unknown function (DUF725) (family)
This family contains several Drosophila proteins of unknown 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.