Human Gene MTHFD1 (ENST00000652337.1_5) from GENCODE V47lift37
  Description: methylenetetrahydrofolate dehydrogenase, cyclohydrolase and formyltetrahydrofolate synthetase 1, transcript variant 1 (from RefSeq NM_005956.4)
Gencode Transcript: ENST00000652337.1_5
Gencode Gene: ENSG00000100714.18_18
Transcript (Including UTRs)
   Position: hg19 chr14:64,855,071-64,926,743 Size: 71,673 Total Exon Count: 28 Strand: +
Coding Region
   Position: hg19 chr14:64,855,146-64,925,021 Size: 69,876 Coding Exon Count: 27 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:64,855,071-64,926,743)mRNA (may differ from genome)Protein (935 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: C1TC_HUMAN
DESCRIPTION: RecName: Full=C-1-tetrahydrofolate synthase, cytoplasmic; Short=C1-THF synthase; Includes: RecName: Full=Methylenetetrahydrofolate dehydrogenase; EC=1.5.1.5; Includes: RecName: Full=Methenyltetrahydrofolate cyclohydrolase; EC=3.5.4.9; Includes: RecName: Full=Formyltetrahydrofolate synthetase; EC=6.3.4.3;
CATALYTIC ACTIVITY: 5,10-methylenetetrahydrofolate + NADP(+) = 5,10-methenyltetrahydrofolate + NADPH.
CATALYTIC ACTIVITY: 5,10-methenyltetrahydrofolate + H(2)O = 10- formyltetrahydrofolate.
CATALYTIC ACTIVITY: ATP + formate + tetrahydrofolate = ADP + phosphate + 10-formyltetrahydrofolate.
PATHWAY: One-carbon metabolism; tetrahydrofolate interconversion.
SUBUNIT: Homodimer.
INTERACTION: P23508:MCC; NbExp=1; IntAct=EBI-709638, EBI-307531; Q9Y4K3:TRAF6; NbExp=1; IntAct=EBI-709638, EBI-359276; Q9P2S5:WDR8; NbExp=1; IntAct=EBI-709638, EBI-1054904;
SUBCELLULAR LOCATION: Cytoplasm.
TISSUE SPECIFICITY: Ubiquitous.
DOMAIN: This trifunctional enzyme consists of two major domains: an N-terminal part containing the methylene-THF dehydrogenase and cyclohydrolase activities and a larger C-terminal part containing formyl-THF synthetase activity.
DISEASE: Defects in MTHFD1 may be a cause of susceptibility to folate-sensitive neural tube defects (FS-NTD) [MIM:601634]. The most common NTDs are open spina bifida (myelomeningocele) and anencephaly. Genetic defects in MTHFD1 may affect the risk of spina bifida via the maternal rather than the embryonic genotype.
DISEASE: Genetic variation in MTHFD1 could be associated with susceptibility to colorectal cancer (CRC) [MIM:114500].
SIMILARITY: In the N-terminal section; belongs to the tetrahydrofolate dehydrogenase/cyclohydrolase family.
SIMILARITY: In the C-terminal section; belongs to the formate-- tetrahydrofolate ligase family.

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
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To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: MTHFD1
Diseases sorted by gene-association score: neural tube defects, folate-sensitive* (870), neural tube defects (16), upper thoracic spina bifida cystica* (11), cervicothoracic spina bifida cystica* (11), cervical spina bifida cystica* (11), lumbosacral spina bifida cystica* (11), thoracolumbosacral spina bifida cystica* (11), total spina bifida cystica* (11), upper thoracic spina bifida aperta* (11), thoracolumbosacral spina bifida aperta* (11), lumbosacral spina bifida aperta* (11), cervical spina bifida aperta* (11), cervicothoracic spina bifida aperta* (11), total spina bifida aperta* (11), anencephaly (3), methylmalonic aciduria and homocystinuria, cblc type (2), colorectal cancer (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -25.5075-0.340 Picture PostScript Text
3' UTR -47.30271-0.175 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000559 - Formate_THF_ligase
IPR020628 - Formate_THF_ligase_CS
IPR016040 - NAD(P)-bd_dom
IPR000672 - THF_DH/CycHdrlase
IPR020630 - THF_DH/CycHdrlase_cat_dom
IPR020867 - THF_DH/CycHdrlase_CS
IPR020631 - THF_DH/CycHdrlase_NAD-bd_dom

Pfam Domains:
PF00763 - Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain
PF01268 - Formate--tetrahydrofolate ligase
PF02882 - Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain

SCOP Domains:
51735 - NAD(P)-binding Rossmann-fold domains
52540 - P-loop containing nucleoside triphosphate hydrolases
53223 - Aminoacid dehydrogenase-like, N-terminal domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1A4I - X-ray 1DIA - X-ray 1DIB - X-ray 1DIG - X-ray


ModBase Predicted Comparative 3D Structure on P11586
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003824 catalytic activity
GO:0004329 formate-tetrahydrofolate ligase activity
GO:0004477 methenyltetrahydrofolate cyclohydrolase activity
GO:0004486 methylenetetrahydrofolate dehydrogenase [NAD(P)+] activity
GO:0004487 methylenetetrahydrofolate dehydrogenase (NAD+) activity
GO:0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016491 oxidoreductase activity
GO:0016787 hydrolase activity
GO:0016874 ligase activity

Biological Process:
GO:0000105 histidine biosynthetic process
GO:0001780 neutrophil homeostasis
GO:0001843 neural tube closure
GO:0006164 purine nucleotide biosynthetic process
GO:0006555 methionine metabolic process
GO:0006730 one-carbon metabolic process
GO:0007507 heart development
GO:0008152 metabolic process
GO:0008652 cellular amino acid biosynthetic process
GO:0009069 serine family amino acid metabolic process
GO:0009070 serine family amino acid biosynthetic process
GO:0009086 methionine biosynthetic process
GO:0009113 purine nucleobase biosynthetic process
GO:0009257 10-formyltetrahydrofolate biosynthetic process
GO:0019346 transsulfuration
GO:0035999 tetrahydrofolate interconversion
GO:0046655 folic acid metabolic process
GO:0048702 embryonic neurocranium morphogenesis
GO:0048703 embryonic viscerocranium morphogenesis
GO:0055114 oxidation-reduction process
GO:0061053 somite development

Cellular Component:
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005829 cytosol
GO:0016020 membrane
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AK302747 - Homo sapiens cDNA FLJ56016 complete cds, highly similar to C-1-tetrahydrofolate synthase, cytoplasmic.
LF384859 - JP 2014500723-A/192362: Polycomb-Associated Non-Coding RNAs.
AK095514 - Homo sapiens cDNA FLJ38195 fis, clone FCBBF1000314.
AK312361 - Homo sapiens cDNA, FLJ92681, Homo sapiens methylenetetrahydrofolate dehydrogenase (NADP+dependent), methenyltetrahydrofolate cyclohydrolase,formyltetrahydrofolate synthetase (MTHFD1), mRNA.
BC050420 - Homo sapiens methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase, mRNA (cDNA clone MGC:54112 IMAGE:5788176), complete cds.
AK309266 - Homo sapiens cDNA, FLJ99307.
BC009806 - Homo sapiens methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase, mRNA (cDNA clone MGC:1372 IMAGE:3508998), complete cds.
J04031 - Human methylenetetrahydrofolate dehydrogenase- methenyltetrahydrofolate cyclohydrolase-formyltetrahydrofolate synthetase mRNA, complete cds.
AB384767 - Synthetic construct DNA, clone: pF1KB3243, Homo sapiens MTHFD1 gene for C-1-tetrahydrofolate synthase, complete cds, without stop codon, in Flexi system.
DQ893634 - Synthetic construct clone IMAGE:100006264; FLH185317.01X; RZPDo839H09146D methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate s> (MTHFD1) gene, encodes complete protein.
DQ896853 - Synthetic construct Homo sapiens clone IMAGE:100011313; FLH185313.01L; RZPDo839H09145D methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate s> (MTHFD1) gene, encodes complete protein.
GQ891332 - Homo sapiens clone HEL-S-103d epididymis secretory sperm binding protein mRNA, complete cds.
MA620436 - JP 2018138019-A/192362: Polycomb-Associated Non-Coding RNAs.
JD350479 - Sequence 331503 from Patent EP1572962.
JD173815 - Sequence 154839 from Patent EP1572962.
LF329663 - JP 2014500723-A/137166: Polycomb-Associated Non-Coding RNAs.
MA565240 - JP 2018138019-A/137166: Polycomb-Associated Non-Coding RNAs.
LF329671 - JP 2014500723-A/137174: Polycomb-Associated Non-Coding RNAs.
LF329672 - JP 2014500723-A/137175: Polycomb-Associated Non-Coding RNAs.
LF329678 - JP 2014500723-A/137181: Polycomb-Associated Non-Coding RNAs.
LF329679 - JP 2014500723-A/137182: Polycomb-Associated Non-Coding RNAs.
LF329681 - JP 2014500723-A/137184: Polycomb-Associated Non-Coding RNAs.
LF329683 - JP 2014500723-A/137186: Polycomb-Associated Non-Coding RNAs.
LF329690 - JP 2014500723-A/137193: Polycomb-Associated Non-Coding RNAs.
LF329691 - JP 2014500723-A/137194: Polycomb-Associated Non-Coding RNAs.
BC001014 - Homo sapiens methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1, methenyltetrahydrofolate cyclohydrolase, formyltetrahydrofolate synthetase, mRNA (cDNA clone IMAGE:3344724), partial cds.
LF329694 - JP 2014500723-A/137197: Polycomb-Associated Non-Coding RNAs.
LF329705 - JP 2014500723-A/137208: Polycomb-Associated Non-Coding RNAs.
JD410456 - Sequence 391480 from Patent EP1572962.
LF329711 - JP 2014500723-A/137214: Polycomb-Associated Non-Coding RNAs.
JD046682 - Sequence 27706 from Patent EP1572962.
JD340971 - Sequence 321995 from Patent EP1572962.
JD102829 - Sequence 83853 from Patent EP1572962.
JD249501 - Sequence 230525 from Patent EP1572962.
MA565248 - JP 2018138019-A/137174: Polycomb-Associated Non-Coding RNAs.
MA565249 - JP 2018138019-A/137175: Polycomb-Associated Non-Coding RNAs.
MA565255 - JP 2018138019-A/137181: Polycomb-Associated Non-Coding RNAs.
MA565256 - JP 2018138019-A/137182: Polycomb-Associated Non-Coding RNAs.
MA565258 - JP 2018138019-A/137184: Polycomb-Associated Non-Coding RNAs.
MA565260 - JP 2018138019-A/137186: Polycomb-Associated Non-Coding RNAs.
MA565267 - JP 2018138019-A/137193: Polycomb-Associated Non-Coding RNAs.
MA565268 - JP 2018138019-A/137194: Polycomb-Associated Non-Coding RNAs.
MA565271 - JP 2018138019-A/137197: Polycomb-Associated Non-Coding RNAs.
MA565282 - JP 2018138019-A/137208: Polycomb-Associated Non-Coding RNAs.
MA565288 - JP 2018138019-A/137214: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-2161 - folate polyglutamylation
PWY-2201-1 - folate transformations I
PWY-5030 - L-histidine degradation
PWY-6613 - tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate

Reactome (by CSHL, EBI, and GO)

Protein P11586 (Reactome details) participates in the following event(s):

R-HSA-200711 THF polyglutamate + formate + ATP => 10-formylTHF polyglutamate + ADP + orthophosphate
R-HSA-200644 5,10-methyleneTHF polyglutamate + NADP+ <=> 5,10-methenylTHF polyglutamate + NADPH + H+
R-HSA-200718 5,10-methenylTHF polyglutamate + NADPH + H+ <=> 5,10-methyleneTHF polyglutamate + NADP+
R-HSA-200661 10-formylTHF polyglutamate <=> 5,10-methenylTHF polyglutamate + H2O
R-HSA-200740 5,10-methenylTHF polyglutamate + H2O <=> 10-formylTHF polyglutamate
R-HSA-196757 Metabolism of folate and pterines
R-HSA-196849 Metabolism of water-soluble vitamins and cofactors
R-HSA-196854 Metabolism of vitamins and cofactors
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: A0A024R652, A0A384N5Y3, B2R5Y2, C1TC_HUMAN, G3V2B8, MTHFC, MTHFD, NM_005956, P11586, Q86VC9, Q9BVP5, uc328uep.1, uc328uep.2
UCSC ID: ENST00000652337.1_5
RefSeq Accession: NM_005956.4
Protein: P11586 (aka C1TC_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.