HCSGD entry for SHMT1

1. General information

Official gene symbolSHMT1
Entrez ID6470
Gene full nameserine hydroxymethyltransferase 1 (soluble)
Other gene symbolsCSHMT SHMT
Links to Entrez GeneLinks to Entrez Gene

2. Neighbors in the network

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This gene isn't in Literature mining network.

3. Gene ontology annotation

GO ID

GO term

Evidence

Category

GO:0004372Glycine hydroxymethyltransferase activityIDA IEA TASmolecular_function
GO:0005634NucleusIDAcellular_component
GO:0005737CytoplasmIDAcellular_component
GO:0005739MitochondrionIEAcellular_component
GO:0005829CytosolIDA IEA TAScellular_component
GO:0006544Glycine metabolic processIEAbiological_process
GO:0006563L-serine metabolic processIEAbiological_process
GO:0006565L-serine catabolic processIDAbiological_process
GO:0006766Vitamin metabolic processTASbiological_process
GO:0006767Water-soluble vitamin metabolic processTASbiological_process
GO:0008168Methyltransferase activityIEAmolecular_function
GO:0008242Omega peptidase activityIEAmolecular_function
GO:0008732L-allo-threonine aldolase activityIEAmolecular_function
GO:0009113Purine nucleobase biosynthetic processIDAbiological_process
GO:0016597Amino acid bindingIEAmolecular_function
GO:0019264Glycine biosynthetic process from serineIEAbiological_process
GO:0030170Pyridoxal phosphate bindingIDA IEAmolecular_function
GO:0034641Cellular nitrogen compound metabolic processTASbiological_process
GO:0035999Tetrahydrofolate interconversionIEAbiological_process
GO:0042802Identical protein bindingIEAmolecular_function
GO:0042803Protein homodimerization activityIDAmolecular_function
GO:0044281Small molecule metabolic processTASbiological_process
GO:0045329Carnitine biosynthetic processTASbiological_process
GO:0046655Folic acid metabolic processIDA TASbiological_process
GO:0051262Protein tetramerizationIDAbiological_process
GO:0051289Protein homotetramerizationIEAbiological_process
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4. Expression levels in datasets

  • Meta-analysis result

p-value upp-value downFDR upFDR down
0.97061427000.08500024320.99999024730.5531004697

  • Individual experiment result
    ( "-" represent NA in the specific microarray platform )

Data sourceUp or downLog fold change
GSE11954Down-0.0884359722
GSE13712_SHEARDown-0.0272038544
GSE13712_STATICUp0.2368377436
GSE19018Up0.0785032729
GSE19899_A1Up0.0693175645
GSE19899_A2Down-0.1948329330
PubMed_21979375_A1Down-0.4853145078
PubMed_21979375_A2Down-0.2841700623
GSE35957Down-0.0260276713
GSE36640Down-1.6440601680
GSE54402Down-0.4207871190
GSE9593Down-0.0514679282
GSE43922--
GSE24585--
GSE37065--
GSE28863_A1Down-0.0610278767
GSE28863_A2Up0.0780404593
GSE28863_A3Up0.0259191791
GSE28863_A4Up0.1030358137
GSE48662Down-0.7723728804

5. Regulation relationships with compounds/drugs/microRNAs

  • Compounds

Not regulated by compounds

  • Drugs

Name

Drug

Accession number

Tetrahydrofolic acidDB00116 NUTR00056
GlycineDB00145 NUTR00028
MimosineDB01055 APRD00647
Triglu-5-Formyl-TetrahydrofolateDB02067 EXPT03045
5-Hydroxymethylene-6-Hydrofolic AcidDB02800 EXPT03049
N-Pyridoxyl-Glycine-5-MonophosphateDB02824 EXPT02606

  • MicroRNAs

  • mirTarBase

MiRNA_name

mirBase ID

miRTarBase ID

Experiment

Support type

References (Pubmed ID)

hsa-miR-193b-3pMIMAT0002819MIRT016266MicroarrayFunctional MTI (Weak)20304954
hsa-miR-125b-5pMIMAT0000423MIRT045899CLASHFunctional MTI (Weak)23622248
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  • mirRecord
No target information from mirRecord

6. Text-mining results about the gene

Gene occurances in abstracts of cellular senescence-associated articles: This gene isn't in text-mining gene-sentence result.