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Tchem
SHMT2
Serine hydroxymethyltransferase, mitochondrial

Protein Summary
Description
Catalyzes the cleavage of serine to glycine accompanied with the production of 5,10-methylenetetrahydrofolate, an essential intermediate for purine biosynthesis (PubMed:24075985, PubMed:29364879, PubMed:25619277). Serine provides the major source of folate one-carbon in cells by catalyzing the transfer of one carbon from serine to tetrahydrofolate (PubMed:25619277). Contributes to the de novo mitochondrial thymidylate biosynthesis pathway via its role in glycine and tetrahydrofolate metabolism: thymidylate biosynthesis is required to prevent uracil accumulation in mtDNA (PubMed:21876188). Also required for mitochondrial translation by producing 5,10-methylenetetrahydrofolate; 5,10-methylenetetrahydrofolate providing methyl donors to produce the taurinomethyluridine base at the wobble position of some mitochondrial tRNAs (PubMed:29452640, PubMed:29364879). Associates with mitochondrial DNA (PubMed:18063578). In addition to its role in mitochondria, also plays a role in the deubiquitinat ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000328923
  • ENSP00000333667
  • ENSG00000182199
  • ENST00000414700
  • ENSP00000406881
  • ENST00000449049
  • ENSP00000413770
  • ENST00000553474
  • ENSP00000452419
  • ENST00000557487
  • ENSP00000452315

Symbol
  • GLYA
  • SHMT
  • HEL-S-51e
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
kinase perturbation
0.99
transcription factor perturbation
0.99
disease perturbation
0.93
cellular component
0.87
pathway
0.87


IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 551.79   (req: < 5)
Gene RIFs: 21   (req: <= 3)
Antibodies: 198   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 551.79   (req: >= 5)
Gene RIFs: 21   (req: > 3)
Antibodies: 198   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 27
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 4
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drugs: 2
Expression Data (0 Tissues)
No expression data found
Protein Sequence and Structure
Residue Counts
Protein Sequence
ProtVista Viewer
Related Tools (4)
Target Illumination GWAS Analytics (TIGA)
Thumbnail image for Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
Thumbnail image for GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
Thumbnail image for GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
Thumbnail image for ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
Protein-Protein Interactions (234)
SHMT1
Tbio
Family:  Enzyme
Novelty:  0.00200739
p_int:  0.99999968
p_ni:  3.2e-7
Score:  0.867
Data Source:  BioPlex,STRINGDB
ABRAXAS2
Tbio
Novelty:  0.20430604
p_int:  0.999874042
p_ni:  0.000125958
Score:  0.976
Data Source:  BioPlex,STRINGDB
BABAM2
Tbio
Novelty:  0.00448485
p_int:  0.999671211
p_ni:  0.000328789
Score:  0.987
Data Source:  BioPlex,STRINGDB
BABAM1
Tbio
Novelty:  0.03812501
p_int:  0.998180388
p_ni:  0.001819612
Score:  0.991
Data Source:  BioPlex,STRINGDB
TMEM184A
Tbio
Novelty:  0.16408207
p_int:  0.970302276
p_ni:  0.029697724
Score:  0.175
Data Source:  BioPlex,STRINGDB
BRCC3
Tbio
Family:  Enzyme
Novelty:  0.04661632
p_int:  0.955690995
p_ni:  0.044309005
Score:  0.997
Data Source:  BioPlex,STRINGDB
GART
Tclin
Novelty:  0.00524985
Score:  0.997
Data Source:  STRINGDB
ATIC
Tchem
Novelty:  0.00466845
Score:  0.993
Data Source:  STRINGDB
MTHFD2
Tchem
Family:  Enzyme
Novelty:  0.01776594
Score:  0.993
Data Source:  STRINGDB
GLDC
Tbio
Family:  Enzyme
Novelty:  0.00900467
Score:  0.99
Data Source:  STRINGDB
Nearest Tclin Targets (4)
Explore Nearest Tclin Targets
1 – 3 of 3
Pathways (28)
Metabolism (R-HSA-1430728)

Click on a row in the table to change the structure displayed.

Find Similar Targets
Items per page:
1 – 4 of 4
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Metabolism
Reactome
Metabolism of folate and pterines
Reactome
Metabolism of vitamins and cofactors
Reactome
Metabolism of water-soluble vitamins and cofactors
Name
Explore in Pharos
Explore in Source
Metabolism
Metabolism of folate and pterines
Metabolism of vitamins and cofactors
Metabolism of water-soluble vitamins and cofactors
Viral Interactions (0)
No viral interactions found
Gene Ontology Terms (37)
Find Similar Targets
Items per page:
10
1 – 9 of 9
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Electronic Annotation (IEA)
Ensembl
Disease Associations (null)
No disease associations found
GWAS Traits (53)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
migraine disorder
6
1
0
1.1
96
urate measurement
2
5
5
95.4
Headache
1
1
1
92.3
migraine without aura, susceptibility to, 4
2
1
0
1.2
85.6
testosterone measurement
2
2
1
1.1
82.3
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
migraine disorder
0
1.1
96
urate measurement
5
95.4
Headache
1
92.3
migraine without aura, susceptibility to, 4
0
1.2
85.6
testosterone measurement
1
1.1
82.3
Find similar targets by:
IDG Resources
No IDG generated resources found
Orthologs (12)
1 – 5 of 12
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
serine hydroxymethyltransferase 2
VGNC:8532
452007
Macaque
serine hydroxymethyltransferase 2
714433
Mouse
MGI:1277989
108037
Rat
RGD:1308582
299857
Dog
serine hydroxymethyltransferase 2
VGNC:46151
607458
Species
Name
OMA
EggNOG
Inparanoid
Chimp
serine hydroxymethyltransferase 2
Macaque
serine hydroxymethyltransferase 2
Mouse
Rat
Dog
serine hydroxymethyltransferase 2
Publication Statistics
PubMed Score 551.79
PubMed score by year
PubTator Score 68.77
PubTator score by year
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Related Publications
Items per page:
0 of 0
PMID
Year
Title