Family Search for PF12225 (DUF5981)

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

PF12225 hits 16 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

TKV_c19890 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Thermoanaerobacter kivui
Aligns to 110:204 / 216 (44.0%), covers 98.9% of PF12225, 129.3 bits

• Electron carriers involved in autotrophic and heterotrophic acetogenesis in the thermophilic bacterium Thermoanaerobacter kivui
  Katsyv, Extremophiles : life under extreme conditions 2021
  • “...MTHFR of T. kivui is of the MetFV-type ( metF , TKV_c19880 and metV , TKV_c19890) (Hess et al. 2014 ; ppinger et al. 2021 ). Methylene-THF was not reduced with NADPH or NADH as reductant in CFE. The reverse reaction, oxidation of methyl-THF was not...”
  • “...of genomic data of T. kivui had indicated the presence of metF (TKV_c19880) and metV (TKV_c19890) (Hess et al. 2014 ). No hdr and mvhD genes, as described for M. thermoacetica (Mock et al. 2014 ) or Sporomusa ovata (Visser et al. 2016 ) or a...”

Tph_c15110 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Thermacetogenium phaeum DSM 12270
Aligns to 111:205 / 223 (42.6%), covers 98.9% of PF12225, 128.9 bits

• Energy-Conserving Enzyme Systems Active During Syntrophic Acetate Oxidation in the Thermophilic Bacterium Thermacetogenium phaeum
  Keller, Frontiers in microbiology 2019
  • “...genes and their maturation factors; Tph_c15140- Tph_c15190), methyl-tetrahydrofolate-corrinoid iron-sulfur protein Co-methyltransferase (Tph_c15130) and MTHFR (Tph_c15100- Tph_c15110). MTHFR subunits of T. phaeum show high similarity to the MetF (Tph_c15100, 39% identity) and MetV (Tph_c15110 34% identity) of A. woodii ( Table 1 ; Keller et al., 2019...”
• Alternative Pathways of Acetogenic Ethanol and Methanol Degradation in the Thermophilic Anaerobe Thermacetogenium phaeum
  Keller, Frontiers in microbiology 2019
  • “...are expressed during growth with all substrates. The two methylene-THF reductase subunits [Tph_c15100 (metF) and Tph_c15110 (metV), 313 and 223 amino acids respectively] are 39 and 34% identical to the methylene-THF reductase subunits in A. woodii (metF 298 amino acids and metV 205 amino acids). However,...”

YP_430049 zinc-finger protein from Moorella thermoacetica ATCC 39073
Aligns to 111:205 / 224 (42.4%), covers 98.9% of PF12225, 127.8 bits

• Origin and Evolution of Flavin-Based Electron Bifurcating Enzymes
  Poudel, Frontiers in microbiology 2018
  • “...Methylene-tetrahydrofolate (H 4 F) reductase/heterodisulfide reductase (Met) MetF YP_430048 9e-13 Mock et al., 2014 MetV YP_430049 0.1 3 Mock et al., 2014 MvhD YP_430050 4e-07 3 Mock et al., 2014 HdrA YP_430051 3e-08 All Mock et al., 2014 HdrB YP_430052 1e-03 All Mock et al., 2014...”

CAETHG_1615, CLJU_RS18525 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Clostridium autoethanogenum DSM 10061
Aligns to 109:203 / 216 (44.0%), covers 100.0% of PF12225, 126.9 bits

• A Heterodimeric Reduced-Ferredoxin-Dependent Methylenetetrahydrofolate Reductase from Syngas-Fermenting Clostridium ljungdahlii
  Yi, Microbiology spectrum 2021
  • “...subunits (Fig. S1): MetF (locus tag in GenBank: CLJU_RS18520) and MetV (locus tag in GenBank: CLJU_RS18525). Gel filtration showed two close peaks (Fig. S2A and B): the small one corresponds to an apparent molecular mass of 132.3kDa, and the big one corresponds to an apparent molecular...”
• A TetR-Family Protein (CAETHG_0459) Activates Transcription From a New Promoter Motif Associated With Essential Genes for Autotrophic Growth in Acetogens
  de, Frontiers in microbiology 2019
  • “...M-280 Streptavidin (Thermo Fisher Scientific) were mixed with DNA containing either the promoter sequence of CAETHG_1615, 1617 (WLP genes assigned with the new promoter motif), or 3224 (a glycolytic gene as a control for our assay since it was assigned the well-known TATAAT motif, which should...”
  • “...and/or other protein(s) bind to P cauto . The promoter sequences of two WLP genes (CAETHG_1615 and 1617, Methylene-tetrahydrofolate reductase domain-containing protein and Methenyl-tetrahydrofolate cyclohydrolase, respectively) annotated with P cauto were used for the DNA-protein binding assay using the promoter pull down/DNA affinity chromatography method (...”

CD0721 hypothetical protein from Clostridium difficile 630
Aligns to 110:204 / 224 (42.4%), covers 100.0% of PF12225, 126.9 bits

• Modulation of toxin production by the flagellar regulon in Clostridium difficile
  Aubry, Infection and immunity 2012
  • “...54 5.4 7.9 5.5 5.6 5.3 CD0237 CD0239 CD0663 CD0721 CD1435 fliD fliC tcdA 126699235 126700229 Not observed in 630erm fliC::erm Not observed in 630erm fliC::erm...”

SOV_1c07720 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Sporomusa ovata DSM 2662
Aligns to 111:205 / 222 (42.8%), covers 98.9% of PF12225, 122.6 bits

• A Third Way of Energy Conservation in Acetogenic Bacteria
  Kremp, Microbiology spectrum 2022
  • “...The core subunits MetV and MetF of the MTHFR from S. ovata are encoded by SOV_1c07720 and SOV_1c07730. Upstream from these genes are genes that encode proteins similar to heterodisulfide reductase proteins HdrCBA and a methyl viologen (MV)-reducing hydrogenase (MvhD) ( SOV_1c07680SOV_1c07710 ) ( 24 )....”

RnfC2 / H6LBX7 ion-translocating oxidoreductase complex subunit C (EC 1.5.1.54) from Acetobacterium woodii (strain ATCC 29683 / DSM 1030 / JCM 2381 / KCTC 1655 / WB1) (see 6 papers)
H6LBX7 ferredoxin-NAD+ oxidoreductase (Na+-transporting) (EC 7.2.1.2) from Acetobacterium woodii (see paper)
Awo_c09290 electron transport complex subunit RsxC from Acetobacterium woodii DSM 1030
Aligns to 110:205 / 654 (14.7%), covers 98.9% of PF12225, 108.1 bits

• A new metabolic trait in an acetogen: Mixed acid fermentation of fructose in a methylene-tetrahydrofolate reductase mutant of Acetobacterium woodii
  Moon, Environmental microbiology reports 2023
  • “...the three subunits RnfC2, MetV and MetF (Bertsch et al., 2015 ), encoded by rnfC2 (Awo_c09290), metV (Awo_c09300) and metF (Awo_c09310) that are clustered with other genes encoding the enzymes of the methyl branch of the WLP, such as fhs1 (Awo_c09260; formylTHF synthetase), fchA (Awo_c09270; methenylTHF...”
  • “...methyl branch 29,762 5362 2.46 Awo_c09280 Methylenetetrahydrofolate dehydrogenase FolD WLP methyl branch 48,052 11,292 2.08 Awo_c09290 Electron transport complex Rnf, C subunit RnfC2 MTHFR 171,346 29,713 2.52 Awo_c10670 CODH Ni 2+ insertion accessory protein CooC1 ACS/CODH 1000 1997 0.99 Awo_c10680 Corrinoid activation/regeneration protein 4126 7952 0.94...”
• Heterotrimeric NADH-oxidizing methylenetetrahydrofolate reductase from the acetogenic bacterium Acetobacterium woodii
  Bertsch, Journal of bacteriology 2015
  • “...MTHFR is postulated to have three subunits, encoded by Awo_c09290 to Awo_c09310, that are part of the cluster of the genes that encode the enzymes catalyzing...”
• An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis
  Poehlein, PloS one 2012
  • “..., the gene encoding the methylene-THF reductase is preceded in A. woodii by two genes (Awo_c09290, Awo_c09300) of unknown function. Homologues of Awo_c09300 are also found together with metF in many acetogens such as M. thermoacetica and C. ljungdahlii , but also in other bacteria and...”
  • “...the small and large subunit of the methylene-THF reductase are cotranscribed with the preceding gene, Awo_c09290, indicating that it is also involved in the reduction of methylene-THF. Awo_c09290 encodes a protein with similarity (61%) to the RnfC-subunit of the Rnf complex, and the residues for binding...”

DSY0138 hypothetical protein from Desulfitobacterium hafniense Y51
Aligns to 427:522 / 561 (17.1%), covers 94.7% of PF12225, 100.4 bits

• Physiological adaptation of Desulfitobacterium hafniense strain TCE1 to tetrachloroethene respiration
  Prat, Applied and environmental microbiology 2011
  • “...DSY1012 DSY4838 DSY2356 DSY1709 DSY1717 DSY1629 DSY1715 DSY0138 DSY1869 DSY1714 DSY1651 DSY1653 DSY0457 DSY0483 DSY4946 DSY2275 DSY3918 DSY2736 DSY5026 32...”
  • “...fixation. Among them, proteins homologous to DSY2356 (FolD), DSY0138 (MetF), and DSY1651 and DSY1653 ( and subunits of CO dehydrogenase-acetyl coenzyme A...”

HTSR_1220 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Halodesulfurarchaeum formicicum
Aligns to 391:486 / 518 (18.5%), covers 88.4% of PF12225, 96.9 bits

• Discovery of anaerobic lithoheterotrophic haloarchaea, ubiquitous in hypersaline habitats
  Sorokin, The ISME journal 2017
  • “...(7) glycine cleavage system proteins H, P and T (HTSR_0503-0506, 1750); (8) methylenetetrahydrofolate reductase (NADPH) (HTSR_1220); (9) electron transfer flavoprotein (HTSR_1748-1749); (10) methionine synthase (HTSR_1805); (11) S-adenosylmethionine hydroxide adenosyltransferase (HTSR_1447); (12) S-adenosylmethionine-dependent methyltransferase (HTSR_1450); (13) adenosylhomocysteinase (HTSR_0160); (14) D-3-phosphoglycerate dehydrogenase (HTSR_0539), (15) phosphoserine phosphatase (HTSR_1388). The...”

metV / H6LBX8 methylenetetrahydrofolate reductase small subunit (EC 1.5.1.54) from Acetobacterium woodii (strain ATCC 29683 / DSM 1030 / JCM 2381 / KCTC 1655 / WB1) (see 6 papers)
Awo_c09300 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Acetobacterium woodii DSM 1030
Aligns to 105:199 / 205 (46.3%), covers 89.5% of PF12225, 96.4 bits

• A new metabolic trait in an acetogen: Mixed acid fermentation of fructose in a methylene-tetrahydrofolate reductase mutant of Acetobacterium woodii
  Moon, Environmental microbiology reports 2023
  • “...which lacks a Grampositive replicon. In pMTL84151_AW_dmetVF, 450bp of upstream flanking regions (UFR) of metV (Awo_c09300) and 700bp of downstream flanking regions (DFR) of metF (Awo_c09310) were cloned into the multiple cloning sites for deletion of the metVF genes via homologous recombination. Moreover, this plasmid contains...”
  • “...subunits RnfC2, MetV and MetF (Bertsch et al., 2015 ), encoded by rnfC2 (Awo_c09290), metV (Awo_c09300) and metF (Awo_c09310) that are clustered with other genes encoding the enzymes of the methyl branch of the WLP, such as fhs1 (Awo_c09260; formylTHF synthetase), fchA (Awo_c09270; methenylTHF cyclohydrolase) and...”
• An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis
  Poehlein, PloS one 2012
  • “...the gene encoding the methylene-THF reductase is preceded in A. woodii by two genes (Awo_c09290, Awo_c09300) of unknown function. Homologues of Awo_c09300 are also found together with metF in many acetogens such as M. thermoacetica and C. ljungdahlii , but also in other bacteria and archaea...”
  • “...with similarity to methylene-THF reductases (MetF) with a conserved flavin binding site. The preceding gene (Awo_c09300) encodes a protein with 205 amino acids and the region from amino acid 104 to 200 is similar to the C-terminal domain of methylene-THF reductases. This domain is encoded in...”

LGS26_08700 methylenetetrahydrofolate reductase C-terminal domain-containing protein from Dissulfurimicrobium hydrothermale
Aligns to 393:493 / 516 (19.6%), covers 75.8% of PF12225, 85.3 bits

• Genetic Potential of Dissulfurimicrobium hydrothermale, an Obligate Sulfur-Disproportionating Thermophilic Microorganism
  Yvenou, Microorganisms 2021
  • “...dehydrogenase/cyclohydrolase (LGS26_01955), a 5-methyltetrahydrofolate corrinoid/iron-sulfur protein methyltransferase (LGS26_01905), a carbon-monoxide dehydrogenase (LGS26_01950), a 5,10-methylenetetrahydrofolate reductase (LGS26_08700; LGS26_08025) and a CO-methylating acetyl-CoA synthase (LGS26_01915). Acetyl-CoA molecules formed by this carbon fixation pathway can then be used as precursor metabolites for lipid synthesis or converted to pyruvate before...”

ACIAD1783 putative methylenetetrahydrofolate reductase from Acinetobacter sp. ADP1
Aligns to 361:453 / 468 (19.9%), covers 90.5% of PF12225, 73.8 bits

• Four families of folate-independent methionine synthases
  Price, PLoS genetics 2021
  • “...do not require methyl-THF. A caveat is that another protein from A . baylyi , ACIAD1783, is distantly related to MetF, but ACIAD1783 lacks the N-terminal part of MetF and probably has another function (see Materials and Methods ). Second, although most of the organisms with...”
  • “...Dehalococcoides mccartyi or Paenarthrobacter aurescens . But in A . baylyi , we also identified ACIAD1783, which is distantly related to characterized MTHFR proteins (under 30% identity) and lacks the N-terminal part of PF02219. (It aligns to position 70281 out of 287 in the model.) We...”

PP_4638 methylenetetrahydrofolate reductase domain protein from Pseudomonas putida KT2440
Aligns to 373:464 / 495 (18.6%), covers 88.4% of PF12225, 70.4 bits

• Creatine utilization as a sole nitrogen source in Pseudomonas putida KT2440 is transcriptionally regulated by CahR
  Hinkel, Microbiology (Reading, England) 2022 (secret)
• Four families of folate-independent methionine synthases
  Price, PLoS genetics 2021
  • “...We are not aware of data about its function, but ACIAD1783 is 39% identical to PP_4638 from Pseudomonas putida KT2440 along its full length. 101 fitness experiments for P . putida are available in the Fitness Browser (as of October 2020) and PP_4638 has no significant...”
  • “...identical to that of the methionine synthase metH (PP_2375; r = 0.96), which suggests that PP_4638 did not provide MTHFR activity in these growth conditions. Overall, ACIAD1783 could be a diverged MTHFR protein, but it probably has another function. Searching for split MetE proteins To identify...”

A1S_1777 putative methylenetetrahydrofolate reductase from Acinetobacter baumannii ATCC 17978
Aligns to 230:321 / 338 (27.2%), covers 86.3% of PF12225, 69.7 bits

• The Manganese-Responsive Transcriptional Regulator MumR Protects Acinetobacter baumannii from Oxidative Stress
  Green, Infection and immunity 2020 (secret)

TK1448 5,10-methylenetetrahydrofolate reductase from Thermococcus kodakaraensis KOD1
Aligns to 4:52 / 352 (13.9%), covers 41.1% of PF12225, 41.6 bits

• A novel DNA nuclease is stimulated by association with the GINS complex
  Li, Nucleic acids research 2011
  • “...TK0470 40 198006 2 0.6 Reverse gyrase TK2276 39 23395 2 16.9 Orotidine 5-phosphate decarboxylase TK1448 37 39518 2 2 5,10-methylenetetrahydrofolate reductase TK2270 29 7456 2 30.2 Unknown TK2255 28 48783 2 3 Bifunctional phosphatase/dolichol-phosphate glucosyltransferase TK0263 27 43206 2 3.5 3-phosphoshikimate 1-carboxyvinyltransferase Proteins with at...”

PF1267 hypothetical protein from Pyrococcus furiosus DSM 3638
Aligns to 1:51 / 338 (15.1%), covers 40.0% of PF12225, 38.6 bits

• Impact of growth mode, phase, and rate on the metabolic state of the extremely thermophilic archaeon Pyrococcus furiosus
  Khatibi, Biotechnology and bioengineering 2017
  • “...Amino acid biosynthesis PF1052 serine/threonine biosynthesis --- 5 8 PF1266 cystathionine gamma-synthase --- 18 11 PF1267 5, 10-methylenetetrahydrofolate reductase --- 15 9 PF1268 homosysteine methyltransferase --- 8 5 Biosynthesis of cofactors, prosthetic groups, and carriers PF1528 pyridoxal 5-phosphate synthase PdxT 3 5 15 PF1529 pyridoxal biosynthesis...”
• A mutant ('lab strain') of the hyperthermophilic archaeon Pyrococcus furiosus, lacking flagella, has unusual growth physiology
  Lewis, Extremophiles : life under extreme conditions 2015
  • “...At all three time points, Met biosynthesis (PF1266-1269) was down-regulated in the mutant; note that PF1267 and PF1268 had mutations corresponding to frame shifts. It is interesting that PF1678-PF1684, which contains genes involved in Lys and Leu biosynthesis, were up-regulated 2 to 3-fold in the mutant...”
  • “...for all conditions tested. There were mutations in two of the ORFs in this operon. PF1267 encodes a putativemethylenetetrahydrofolatereductase (MTHFR) based on protein domain homology and presence in a methionine biosynthesis operon, which converts homocysteine to methionine, while PF1268 ( metE ) encodes a 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferase,...”
• Cold shock of a hyperthermophilic archaeon: Pyrococcus furiosus exhibits multiple responses to a suboptimal growth temperature with a key role for membrane-bound glycoproteins
  Weinberg, Journal of bacteriology 2005
  • “...PF1054 PF1055 PF1056 PF1062 PF1104 PF1137 Methionine biosynthesis PF1266 PF1267 PF1268 PF1270 PF1344 PF1348 PF1408 1.6 0.5 (3.1) 1.7 0.7 (3.2) 2.0 0.5 (4.0) 2.4...”
• Whole-genome DNA microarray analysis of a hyperthermophile and an archaeon: Pyrococcus furiosus grown on carbohydrates or peptides
  Schut, Journal of bacteriology 2003
  • “...[Unknown] PF1129 PF1130 [Methionine biosynthesis] PF1266 PF1267 PF1268 PF1269 Ferredoxin:NADPH oxidoreductase I PF1327 PF1328 [Unknown] PF1536 PF1537 PF1538...”

Or search for genetic data about PF12225 in the Fitness Browser