Browse SHMT1

Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Basic function annotation.
> Subcellular Location, Domain and Function
> Gene Ontology
> KEGG and Reactome Pathway
> Subcellular Location, Domain and Function
 
Subcellular Location Cytoplasm.
Domain -
Function

Interconversion of serine and glycine (PubMed:8505317, PubMed:24698160).

> Gene Ontology
 
Biological Process GO:0006144 purine nucleobase metabolic process
GO:0006220 pyrimidine nucleotide metabolic process
GO:0006221 pyrimidine nucleotide biosynthetic process
GO:0006231 dTMP biosynthetic process
GO:0006520 cellular amino acid metabolic process
GO:0006544 glycine metabolic process
GO:0006545 glycine biosynthetic process
GO:0006563 L-serine metabolic process
GO:0006565 L-serine catabolic process
GO:0006575 cellular modified amino acid metabolic process
GO:0006577 amino-acid betaine metabolic process
GO:0006578 amino-acid betaine biosynthetic process
GO:0006730 one-carbon metabolic process
GO:0006732 coenzyme metabolic process
GO:0006760 folic acid-containing compound metabolic process
GO:0006766 vitamin metabolic process
GO:0006767 water-soluble vitamin metabolic process
GO:0008652 cellular amino acid biosynthetic process
GO:0009063 cellular amino acid catabolic process
GO:0009069 serine family amino acid metabolic process
GO:0009070 serine family amino acid biosynthetic process
GO:0009071 serine family amino acid catabolic process
GO:0009112 nucleobase metabolic process
GO:0009113 purine nucleobase biosynthetic process
GO:0009123 nucleoside monophosphate metabolic process
GO:0009124 nucleoside monophosphate biosynthetic process
GO:0009129 pyrimidine nucleoside monophosphate metabolic process
GO:0009130 pyrimidine nucleoside monophosphate biosynthetic process
GO:0009157 deoxyribonucleoside monophosphate biosynthetic process
GO:0009162 deoxyribonucleoside monophosphate metabolic process
GO:0009165 nucleotide biosynthetic process
GO:0009176 pyrimidine deoxyribonucleoside monophosphate metabolic process
GO:0009177 pyrimidine deoxyribonucleoside monophosphate biosynthetic process
GO:0009219 pyrimidine deoxyribonucleotide metabolic process
GO:0009221 pyrimidine deoxyribonucleotide biosynthetic process
GO:0009262 deoxyribonucleotide metabolic process
GO:0009263 deoxyribonucleotide biosynthetic process
GO:0009265 2'-deoxyribonucleotide biosynthetic process
GO:0009394 2'-deoxyribonucleotide metabolic process
GO:0009437 carnitine metabolic process
GO:0016053 organic acid biosynthetic process
GO:0016054 organic acid catabolic process
GO:0019264 glycine biosynthetic process from serine
GO:0019692 deoxyribose phosphate metabolic process
GO:0035999 tetrahydrofolate interconversion
GO:0042440 pigment metabolic process
GO:0042558 pteridine-containing compound metabolic process
GO:0044282 small molecule catabolic process
GO:0044283 small molecule biosynthetic process
GO:0045329 carnitine biosynthetic process
GO:0046073 dTMP metabolic process
GO:0046112 nucleobase biosynthetic process
GO:0046148 pigment biosynthetic process
GO:0046385 deoxyribose phosphate biosynthetic process
GO:0046394 carboxylic acid biosynthetic process
GO:0046395 carboxylic acid catabolic process
GO:0046653 tetrahydrofolate metabolic process
GO:0046655 folic acid metabolic process
GO:0051186 cofactor metabolic process
GO:0051259 protein oligomerization
GO:0051260 protein homooligomerization
GO:0051262 protein tetramerization
GO:0051289 protein homotetramerization
GO:0072522 purine-containing compound biosynthetic process
GO:0072527 pyrimidine-containing compound metabolic process
GO:0072528 pyrimidine-containing compound biosynthetic process
GO:1901293 nucleoside phosphate biosynthetic process
GO:1901565 organonitrogen compound catabolic process
GO:1901605 alpha-amino acid metabolic process
GO:1901606 alpha-amino acid catabolic process
GO:1901607 alpha-amino acid biosynthetic process
GO:1904481 response to tetrahydrofolate
GO:1904482 cellular response to tetrahydrofolate
Molecular Function GO:0004372 glycine hydroxymethyltransferase activity
GO:0004793 threonine aldolase activity
GO:0008732 L-allo-threonine aldolase activity
GO:0016597 amino acid binding
GO:0016741 transferase activity, transferring one-carbon groups
GO:0016742 hydroxymethyl-, formyl- and related transferase activity
GO:0016829 lyase activity
GO:0016830 carbon-carbon lyase activity
GO:0016832 aldehyde-lyase activity
GO:0030170 pyridoxal phosphate binding
GO:0031406 carboxylic acid binding
GO:0043168 anion binding
GO:0043177 organic acid binding
GO:0048037 cofactor binding
GO:0070905 serine binding
Cellular Component -
> KEGG and Reactome Pathway
 
KEGG hsa00260 Glycine, serine and threonine metabolism
hsa00630 Glyoxylate and dicarboxylate metabolism
hsa00670 One carbon pool by folate
hsa01100 Metabolic pathways
hsa01200 Carbon metabolism
hsa01230 Biosynthesis of amino acids
Reactome R-HSA-70895: Branched-chain amino acid catabolism
R-HSA-71262: Carnitine synthesis
R-HSA-1430728: Metabolism
R-HSA-71291: Metabolism of amino acids and derivatives
R-HSA-196757: Metabolism of folate and pterines
R-HSA-196854: Metabolism of vitamins and cofactors
R-HSA-196849: Metabolism of water-soluble vitamins and cofactors
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Literatures that report relations between SHMT1 and anti-tumor immunity. The specific mechanism were also collected if the literature reports that a gene specifically promotes or inhibits the infiltration or function of T/NK cells.
> Text Mining
 

There is no record.
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content High-throughput screening data (e.g. CRISPR-Cas9, shRNA and RNAi) for T cell-mediated killing. Genetic screen techniques can identify mechanisms of tumor cell resistance (e.g., PTPN2) and sensitivity (e.g., APLNR) to killing by cytotoxic T cells, the central effectors of anti-tumor immunity. After comprehensively searching, eight groups of screening data sets were collected in the current database. In this tab, users can check whether their selected genes cause resistance or increase sensitivity to T cell-mediated killing in various data sets.
> High-throughput Screening
  Statistical results of SHMT1 in screening data sets for detecting immune reponses.
PMID Screening System Cancer Type Cell Line Data Set Statistical Results Relation to immunity
29301958CRISPR-Cas9 melanomaB16F10Pmel-1 T cell NA/NSNA/NS
29301958CRISPR-Cas9 melanomaB16F10OT-1 T cell NA/NSNA/NS
28783722CRISPR-Cas9 melanomaMel6242CT-CRISPR NA/NSNA/NS
28723893CRISPR-Cas9 melanomaB16GVAX+Anti-PD1 NA/NSNA/NS
28723893CRISPR-Cas9 melanomaB16GVAX NA/NSNA/NS
25691366RNAiBreast cancerMCF7Luc-CTL assay NA/NSNA/NS
24476824shRNAmelanomaB16Primary screen NA/NSNA/NS
24476824shRNAmelanomaB16Secondary screen NA/NSNA/NS
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Transcriptomic and genomic profiling of pre-treated tumor biopsies from responders and non-responders to immunotherapy. These data were used to identify signatures and mechanisms of response to checkpoint blockade (e.g., anti-PDL1 and anti-PD1). One example is that mutations in the gene PBRM1 benefit clinical survival of patients with clear cell renal cell carcinoma. After comprehensively searching, we collected 5 and 6 of transcriptomic and genomic data sets, respectively. In this tab, users can check whether their selected genes have significant difference of expression or mutation between responders and non-responders in various data sets.
> Expression difference between responders and non-responders
> Mutation difference between responders and non-responders
> Expression difference between responders and non-responders
 
Points in the above scatter plot represent the expression difference of SHMT1 in various data sets.
No PMID Cancer type Group Drug # Res # NRes Log2 (Fold Change) P value Anno
126997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)14120.8370.018
226997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)650.0650.973
326997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)871.4150.239
428552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160.8690.0177
528552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590.8160.631
628552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470.940.675
729033130MelanomaallAnti-PD-1 (nivolumab) 26230.0210.956
829033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 15110.2140.876
929033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 1112-0.3370.844
1029301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 48-0.2980.88
1129301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 2001
1229301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 28-0.4840.87
1329443960Urothelial cancerallAnti-PD-L1 (atezolizumab) 682300.1730.157
> Mutation difference between responders and non-responders
 
Points in the above scatter plot represent the mutation difference of SHMT1 in various data sets.
No PMID Cancer type Group Drug # Res # NRes % Mut/Res % Mut/NRes % Diff (R vs NR) Pval Anno
125765070Non-small cell lung cancer (NSCLC)allAnti-PD-1 (pembrolizumab) 14170001
225765070Non-small cell lung cancer (NSCLC)smokingAnti-PD-1 (pembrolizumab) 1030001
325765070Non-small cell lung cancer (NSCLC)non-smokingAnti-PD-1 (pembrolizumab) 4140001
426359337MelanomaallAnti-CTLA-4 (ipilimumab) 277301.4-1.41
526359337MelanomaBRAFiAnti-CTLA-4 (ipilimumab) 0140001
626359337Melanomanon-BRAFiAnti-CTLA-4 (ipilimumab) 275901.7-1.71
726997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)21170001
826997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)860001
926997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)13110001
1028552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 91611.16.24.91
1128552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590001
1228552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 472514.310.71
1329033130MelanomaallAnti-PD-1 (nivolumab) 38272.602.61
1429033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 22134.504.51
1529033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 16140001
1629301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 11130001
1729301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 610001
1829301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 5120001
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of SHMT1. The immune-related signatures of 28 TIL types from Charoentong's study, which can be viewed in the download page. For each cancer type, the relative abundance of TILs were inferred by using gene set variation analysis (GSVA) based on gene expression profile. In this tab, users can examine which kinds of TILs might be regulated by the current gene.
> Lymphocyte
 
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of SHMT1. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by SHMT1.
> Immunoinhibitor
> Immunostimulator
> MHC molecule
> Immunoinhibitor
 
> Immunostimulator
 
> MHC molecule
 
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of SHMT1. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene.
> Chemokine
> Receptor
> Chemokine
 
> Receptor
 
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Distribution of SHMT1 expression across immune and molecular subtypes.
> Immune subtype
> Molecular subtype
> Immune subtype
 
> Molecular subtype
 
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Associations between SHMT1 and clinical features.
> Overall survival analysis
> Cancer stage
> Tumor grade
> Overall survival
 
> Stage
 
> Grade
 
Summary
SymbolSHMT1
Nameserine hydroxymethyltransferase 1 (soluble)
Aliases CSHMT; MGC15229; MGC24556; cytoplasmic serine hydroxymethyltransferase; 14 kDa protein; Serine hydroxymethyl ......
Chromosomal Location17p11.2
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Drugs targeting SHMT1 collected from DrugBank database.
> Drugs from DrugBank database
 

  Details on drugs targeting SHMT1.
ID Name Drug Type Targets #Targets
DB00114Pyridoxal PhosphateSmall MoleculeAADAT, ABAT, AGXT, AGXT2, ALAS1, ALAS2, AZIN2, BCAT1, BCAT2, CBS, ......54
DB00116Tetrahydrofolic acidSmall MoleculeALDH1L1, AMT, ATIC, FTCD, MTFMT, MTHFD1, MTHFD2, MTHFR, MTR, SHMT1 ......11
DB00145GlycineSmall MoleculeAGXT, AGXT2, ALAS1, ALAS2, BAAT, GARS, GATM, GCAT, GCSH, GLDC, GLR ......30
DB01055MimosineSmall MoleculeCCL2, SHMT1, TYR3
DB02067Triglu-5-Formyl-TetrahydrofolateSmall MoleculeSHMT11
DB028005-Hydroxymethylene-6-Hydrofolic AcidSmall MoleculeSHMT11
DB02824N-Pyridoxyl-Glycine-5-MonophosphateSmall MoleculeODC1, SHMT12