Family Search for PF01940 (DUF92)

April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.

PF01940 hits 14 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

PGR_ARATH / Q0WP96 Protein PGR; AtPGR; Plasma membrane glucose-responsive regulator; Transmembrane protein 19-like protein; VTE6-related protein; VTE6R from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G19930 integral membrane family protein from Arabidopsis thaliana
Aligns to 14:277 / 288 (91.7%), covers 99.2% of PF01940, 271.1 bits

• function: Involved in the glucose-triggered developmental leaf growth process.
• Network mapping of root-microbe interactions in Arabidopsis thaliana
  He, NPJ biofilms and microbiomes 2021
  • “...SS5 AT5G11430 AT5G35555 AT1G72230 UBP22 JAZ6 CSTF77 AT3G01850 AT3G12350 IGPD DELTA-VPE AT4G15640 DEL2 AT4G16050 MAIN AT5G19930 CAP1 SBT5.4 DEL2 Gene AT4G31360 AT4G25610 NAC058 AT5G20660 AT2G34185 AT5G19480 AT4G00320 UPL4 AT3G13662 PEPR2 AT5G11750 Aggression QTLs 1 2 0 1 7 2 GA2OX5 AT1G12760 AT5G19097 AT5G35525 AT3G30405 AT5G35495 PDE320...”
• Arabidopsis Basic Helix-Loop-Helix 34 (bHLH34) Is Involved in Glucose Signaling through Binding to a GAGA Cis-Element
  Min, Frontiers in plant science 2017
  • “...Initiative numbers for the sequences used in this study are as follows: bHLH34 (At3g23210), AtPGR (At5g19930), bHLH104 (At4g14410), bHLH105 (At5g54680), bHLH115 (At1g51070), bHLH28 (At5g46830), bHLH47 (At3g47640), bHLH11 (At4g36060), bHLH121 (At3g19860), AtHXK1 (At4g29130), RAB18 (At5g66400), RD29A (At5g52310), GIN6 (At2g40220), AtAPR2 (At1g62180), ABO3 (At1g66600), ABI1 (At4g26080), AtOZF2 (At4g29190),...”
• Synergistic use of plant-prokaryote comparative genomics for functional annotations
  Gerdes, BMC genomics 2011
  • “...Pyridoxal phosphate enzyme related to glutamate metabolism In progress in E. coli 589 25 At1g78620 At5g19930 1836 alr1612 COG1836 Phytol-phosphate metabolism Shown to be an essential gene in Synechocystis 6803. Further work in progress in Arabidopsis 77 26 At5g12950 At5g12960 3533 SAV1144 DOE COG3533 Hydroxyproline-galactosyl hydrolase...”

Q96HH6 Transmembrane protein 19 from Homo sapiens
Aligns to 59:322 / 336 (78.6%), covers 99.2% of PF01940, 266.8 bits

• Identifying diabetes-related important protein targets with few interacting partners with the PageRank algorithm
  Grolmusz, Royal Society open science 2015
  • “...3-alpha P62341 95.12 1 95.12 selenoprotein T Q9NZ43 188.62 2 94.31 vesicle transport protein USE1 Q96HH6 188.62 2 94.31 transmembrane protein 19 Q9Y2Y9 239.08 3 79.69 Krueppel-like factor 13 NSLP1 BTEB3 P43694 65.78 1 65.78 transcription factor GATA-4 Q9UGH3 64.64 1 64.64 sodium-dependent vitamin C transporter...”

AFUA_2G15640 DUF92 domain protein from Aspergillus fumigatus Af293
Aligns to 8:347 / 372 (91.4%), covers 99.2% of PF01940, 257.6 bits

• Receptor-mediated signaling in Aspergillus fumigatus
  Grice, Frontiers in microbiology 2013
  • “...AFUA_2G14180 XP_755751.2 Conserved hypothetical protein AFUA_2G15100 XP_755844.2 Integral membrane protein AFUA_2G15440 XP_755879.2 DUF92 domain protein AFUA_2G15640 XP_755899.1 Rhomboid family membrane protein AFUA_2G16490 XP_755986.1 Integral membrane protein AFUA_2G16985 XP_001481687.1 Sulfatase domain protein AFUA_2G17610 XP_756096.1 Integral membrane protein AFUA_2G17760 XP_756111.1 RTA1 domain protein AFUA_2G17810 XP_756116.1 RTA1 domain protein...”

VDAG_00187 DUF92 domain-containing protein from Verticillium dahliae VdLs.17
Aligns to 8:369 / 390 (92.8%), covers 99.2% of PF01940, 248.5 bits

• The bZip Transcription Factor VdMRTF1 is a Negative Regulator of Melanin Biosynthesis and Virulence in Verticillium dahliae
  Lai, Microbiology spectrum 2022
  • “...expression of VDAG_00183 (THN-reductase), VDAG_00184 (polyketide synthase, PKS ), VDAG_00185 (hypothetical protein), VDAG_00186 (pyridoxal-dependent decarboxylase), VDAG_00187 (DUF92 domain containing protein), VDAG_00190 (polyketide synthase, PKS ), VDAG_00193 (hypothetical protein), VDAG_00194 (Pig1 transcription factor), and VDAG_00195 ( Cmr1 transcription factor) were downregulated ( Fig.7A ). To examine further...”

alr1612 hypothetical protein from Nostoc sp. PCC 7120
Aligns to 18:250 / 265 (87.9%), covers 99.2% of PF01940, 226.1 bits

• Synergistic use of plant-prokaryote comparative genomics for functional annotations
  Gerdes, BMC genomics 2011
  • “...enzyme related to glutamate metabolism In progress in E. coli 589 25 At1g78620 At5g19930 1836 alr1612 COG1836 Phytol-phosphate metabolism Shown to be an essential gene in Synechocystis 6803. Further work in progress in Arabidopsis 77 26 At5g12950 At5g12960 3533 SAV1144 DOE COG3533 Hydroxyproline-galactosyl hydrolase In progress...”
• Very small mobile repeated elements in cyanobacterial genomes
  Elhai, Genome research 2008
  • “...pnpaf278), Anabaena PCC 7120 (genes alr0534, all1327, alr1612, all2013, alr2719, and alr3810), Anabaena variabilis (genes ava0005, ava2936, and ava3794), and...”

sll0875 hypothetical protein from Synechocystis sp. PCC 6803
Aligns to 25:245 / 258 (85.7%), covers 98.8% of PF01940, 218.9 bits

• Proteome Mapping of a Cyanobacterium Reveals Distinct Compartment Organization and Cell-Dispersed Metabolism
  Baers, Plant physiology 2019
  • “.... Of the remaining 62 uncharacterized TM localized proteins in Synechocystis , 10 (slr1747, sll0862, sll0875, sll1071, sll1399, sll1925, slr0575, slr1591, slr1821, slr1919) have homologs in Chlamydomonas reinhardtii and Arabidopsis, suggesting a conserved role throughout the photosynthetic lineage (highlighted in red in Supplemental Table S10 )....”
• Screening and genetic characterization of thermo-tolerant Synechocystis sp. PCC6803 strains created by adaptive evolution
  Tillich, BMC biotechnology 2014
  • “...strain A1 and in 51.9% of mutIV-mix-2 reads. The mutation upstream of the hypothetical proteins sll0875 & slr0876 . A few mutations were only fond in mutIV-mix-2 but not in any of the monoclonal strains (Table 4 ). These include mutations the genes recG , cmpA...”
  • “...higher temperatures. For sll0064 , slr1098 as well the mutation upstream of the hypothetical proteins sll0875 & slr0876 it is difficult to speculate upon the possible effects, as the full function of the proteins in Synechocystis is still unknown. While sll0064 is classified as a putative...”

Mbar_A3310 integral membrane protein from Methanosarcina barkeri str. fusaro
Aligns to 220:440 / 451 (49.0%), covers 99.6% of PF01940, 211.3 bits

• Comparative genomic analysis of evolutionarily conserved but functionally uncharacterized membrane proteins in archaea: Prediction of novel components of secretion, membrane remodeling and glycosylation systems
  Makarova, Biochimie 2015
  • “...cytidylyltransferase [ 64 ] is conserved in arCOG02245 proteins. Several arCOG02245 domain-containing proteins, such as Mbar_A3310 from Methanosarcina barkeri , contain another, N-terminal domain that belongs to the same family although more similar to dolichol kinase Sec59. For example, HHpred search started from the first 210...”

rrnAC1718 unknown from Haloarcula marismortui ATCC 43049
Aligns to 121:341 / 354 (62.4%), covers 99.2% of PF01940, 197.8 bits

• Genome information management and integrated data analysis with HaloLex
  Pfeiffer, Archives of microbiology 2008
  • “...HQ1292A rrnAC1702 1,719 1,218 Extended NP1742A, OE3490R, HQ3347A rrnAC1708 1,347 1,089 Extended NP4502A, HQ3336A, OE3496R rrnAC1718 1,359 1,065 Extended NP4542A, OE3506F, HQ3330A rrnAC1726 1,527 1,485 Extended HQ3326A, OE3511F, NP4534A rrnAC1743 549 486 Extended HQ1673A, NP5358A, rrnAC3526 rrnAC1764 924 978 Shortened rrnAC1777, NP5168A, OE1385F, HQ1277A rrnAC1774 339...”

MJ_0933 TIGR00297 family protein from Methanocaldococcus jannaschii DSM 2661
Aligns to 12:223 / 233 (91.0%), covers 99.2% of PF01940, 197.2 bits

• Comparative genomic analysis of evolutionarily conserved but functionally uncharacterized membrane proteins in archaea: Prediction of novel components of secretion, membrane remodeling and glycosylation systems
  Makarova, Biochimie 2015
  • “...the outer leaf of the cytoplasmic membrane. An HHpred search started from M. jannaschii protein MJ_0933, a representative of arCOG02245 (COG1836, pfam01940), identifies sequence similarity with pfam01148, cytidylyltransferase family, with the probability of 97.57%. Moreover, the two aspartate residues involved in binding the Mg 2+ K...”

LOC100283913 putative conserved membrane protein from Zea mays
Aligns to 81:305 / 320 (70.3%), covers 99.2% of PF01940, 196.9 bits

• Comparative proteomics of chloroplasts envelopes from bundle sheath and mesophyll chloroplasts reveals novel membrane proteins with a possible role in c4-related metabolite fluxes and development
  Manandhar-Shrestha, Frontiers in plant science 2013
  • “...predicted function . Protein name Accession no. No. of TM regions (Octopus) Predicted function 5TM LOC100283913 8 A.t . homolog contains a DUF92 domain; predicted to be associated with the chloroplast inner envelope (NCBI). ER-AP LOC100283096 3 ER-associated protein but was also found in the chloroplast....”

VTE6_ARATH / Q9SYM0 Protein VTE6, chloroplastic; Phytyl-P kinase; Vitamin E deficient 6; EC 2.7.4.- from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
NP_565184 integral membrane protein (Protein of unknown function DUF92, transmembrane) from Arabidopsis thaliana
AT1G78620 integral membrane family protein from Arabidopsis thaliana
Aligns to 93:317 / 333 (67.6%), covers 98.4% of PF01940, 191.5 bits

• function: Phytyl-phosphate kinase catalyzing the conversion of phytyl- monophosphate to phytyl-diphosphate (PubMed:26452599). Involved in the activation and reutilization of phytol from chlorophyll degradation in plant metabolism, including tocopherol (vitamin E) biosynthesis (PubMed:26452599). Involved in the biosynthesis of phylloquinone (vitamin K), which is required for the photosystem I (PSI) complex stability (PubMed:28007557).
  catalytic activity: a ribonucleoside 5'-triphosphate + phytyl phosphate = a ribonucleoside 5'-diphosphate + phytyl diphosphate (RHEA:38099)
  catalytic activity: CTP + phytyl phosphate = CDP + phytyl diphosphate (RHEA:49276)
  disruption phenotype: Lethal when homozygous. Tocopherol-deficient plants are unable to grow photoautotrophically and infertile. Vte5 and vte6 double mutants can grow photoautotrophically and display a stay- green phenotype with strongly delayed senescence and an extended lifetime.
• Remobilization of Phytol from Chlorophyll Degradation Is Essential for Tocopherol Synthesis and Growth of Arabidopsis.
  Vom, The Plant cell 2015
  • GeneRIF: VTE6 represents the missing phytyl-phosphate kinase, linking phytol release from chlorophyll with tocopherol synthesis.
• Antioxidants of Non-Enzymatic Nature: Their Function in Higher Plant Cells and the Ways of Boosting Their Biosynthesis
  Rudenko, Antioxidants (Basel, Switzerland) 2023
  • “...VTE5, phytol kinase Phosphorylation of free phytol for further biosynthesis of tocopherols [ 32 ] At1g78620 VTE6, phytyl-phosphate kinase A key enzyme for phytol phosphorylation for further biosynthesis of tocopherols and phylloquinone [ 33 ] At1g78510 SPS1 Solanesyl diphosphate synthases Solanesyl diphosphate condensation from geranylgeranyl diphosphate...”
• Unraveling Hidden Components of the Chloroplast Envelope Proteome: Opportunities and Limits of Better MS Sensitivity
  Bouchnak, Molecular & cellular proteomics : MCP 2019
  • “...I ), was not identified by earlier proteomic studies ( 12 , 14 ). VTE6 (At1g78620, formerly called HP34) was demonstrated to be a phytyl-phosphate kinase catalyzing the conversion of phytyl-monophosphate to phytyl-diphosphate ( 57 ). ceQORH (At4g13010), a former putative quinone oxidoreductase, was recently demonstrated...”
• Recent Advances in our Understanding of Tocopherol Biosynthesis in Plants: An Overview of Key Genes, Functions, and Breeding of Vitamin E Improved Crops
  Fritsche, Antioxidants (Basel, Switzerland) 2017
  • “...CTP/UTP Phytyl-P AT5G04490 [ 14 ] VTE6 Phytyl -P kinase Phosphorylation Phytol-P + CTP Phytyl-PP(PDP) AT1G78620 [ 13 ] 3 VTE2 HPT Phytylation HGA + PDP MPBQ AT2G18950 [ 19 , 20 , 21 , 22 , 23 ] 4 VTE3 MPBQ/MSBQ MT Methylation MPBQ/MSBQ DMPQ...”
• Remobilization of Phytol from Chlorophyll Degradation Is Essential for Tocopherol Synthesis and Growth of Arabidopsis
  Vom, The Plant cell 2015 (PubMed)
  • “...for the phytyl-phosphate kinase from Arabidopsis thaliana (At1g78620) was identified via a phylogeny-based approach. This gene was designated VITAMIN E...”
  • “...present in Synechocystis (sll0875) and in Arabidopsis (At1g78620) (Seaver et al., 2014). Here, we describe the characterization of the Arabidopsis At1g78620...”
• High-throughput comparison, functional annotation, and metabolic modeling of plant genomes using the PlantSEED resource
  Seaver, Proceedings of the National Academy of Sciences of the United States of America 2014
  • “...and PlantSEED identified a hypothetical membrane protein, AT1G78620 (COG1836, DUF92), as a promising candidate for the missing role of phytylphosphate kinase,...”
  • “...bacteria (SI Text and Fig. 4). The localization of AT1G78620 in the chloroplast envelope (53) and the similarity of AT1G78620 expression patterns with those of...”
• Widespread dual targeting of proteins in land plants: when, where, how and why
  Carrie, Plant signaling & behavior 2013
  • “...At2g02510 At2g04842 At1g79230 Arabidopsis thaliana At1g78620 Arabidopsis thaliana Arabidopsis thaliana Arabidopsis thaliana At1g74350 At1g74600 Arabidopsis...”
• Synergistic use of plant-prokaryote comparative genomics for functional annotations
  Gerdes, BMC genomics 2011
  • “...PROSC Pyridoxal phosphate enzyme related to glutamate metabolism In progress in E. coli 589 25 At1g78620 At5g19930 1836 alr1612 COG1836 Phytol-phosphate metabolism Shown to be an essential gene in Synechocystis 6803. Further work in progress in Arabidopsis 77 26 At5g12950 At5g12960 3533 SAV1144 DOE COG3533 Hydroxyproline-galactosyl...”
• Host origin of plastid solute transporters in the first photosynthetic eukaryotes
  Tyra, Genome biology 2007
  • “...Sugar transporter Cyanobacterial At1g04570 Integral membrane family protein At1g08640 Expressed protein At1g19800 Trigalactosyldiacylglycerol 1, TGD1 At1g78620 Integral membrane family protein At2g32040 Folate monoglutamate transporter, FT At3g51140 Expressed protein At3g60590 Expressed protein At4g33520 Metal-transporting P-type ATPase (PAA1) At5g12470 Expressed protein At5g64940 ABC1-family protein Chlamydia-like At1g15500 Adenine nucleotide...”

CND01270 hypothetical protein from Cryptococcus neoformans var. neoformans JEC21
Aligns to 1:237 / 246 (96.3%), covers 80.9% of PF01940, 184.7 bits

• Unisexual reproduction drives meiotic recombination and phenotypic and karyotypic plasticity in Cryptococcus neoformans
  Sun, PLoS genetics 2014
  • “...JOHE40215 JOHE40216 Hpy188I CEN flanking Inter- CND01130 CND01140 8 4 331643 JOHE26611 JOHE26696 HhaI Inter- CND01270 CND01280 9 5 362686 JOHE26625 JOHE26710 HaeIII Inter- CND01480 CND01490 10 6 416408 JOHE40269 JOHE40270 NciI Inter- CND01730 CND01740 11 468458 JOHE26670 JOHE26755 AatII Inter- CND02320 CND02330 12 623225 JOHE40283...”
  • “...Chrom4_280 kb Inter- CND01130 CND01140 5.1 [19] 1 51 10 8/9 Inter- CND01130 CND01140 Inter- CND01270 CND01280 2.9 [2.7] 1 31 10.69 9/10 Inter- CND01270 CND01280 Inter- CND01480 CND01490 9.1 [13.5] 1 54 5.93 10/11 Inter- CND01480 CND01490 Inter- CND01730 CND01740 5.4 52 9.63 11/12 Inter-...”

H0YIS8 Transmembrane protein 19 (Fragment) from Homo sapiens
Aligns to 3:163 / 166 (97.0%), covers 49.8% of PF01940, 144.8 bits

• Lactate Dehydrogenase B and Pyruvate Oxidation Pathway Associated With Carfilzomib-Related Cardiotoxicity in Multiple Myeloma Patients: Result of a Multi-Omics Integrative Analysis
  Tantawy, Frontiers in cardiovascular medicine 2021
  • “...-value F8WA32 Testis-specific gene 10 protein (Fragment) 12.69 0.00001 K7ERG9 Complement factor D 6.15 0.00006 H0YIS8 Transmembrane protein 19 (Fragment) 0.15 0.00012 P05543 Thyroxine-binding globulin 9.90 0.00027 P18065 Insulin-like growth factor-binding protein 2 7.67 0.00169 Q9Y5Z9 UbiA prenyltransferase domain-containing protein 1 1.66 0.00169 Q8NDI1 EH domain-binding...”

Q59239 cyclomaltodextrin glucanotransferase (EC 2.4.1.19) from Bacillus sp. (in: Bacteria) (see paper)
BAA02380.1 β-cyclodextrin glucanotransferase (EC 2.4.1.19) (see protein)
Aligns to 1:37 / 725 (5.1%), covers 14.3% of PF01940, 37.8 bits

Or search for genetic data about PF01940 in the Fitness Browser