TISIDB

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
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 [ TOP ]
Subcellular Location	Nucleus Cytoplasm
Domain	character(0) character(0) PF02260 FATC domain PF00454 Phosphatidylinositol 3- and 4-kinase PF15785 Serine/threonine-protein kinase smg-1
Function	Serine/threonine protein kinase involved in both mRNA surveillance and genotoxic stress response pathways. Recognizes the substrate consensus sequence [ST]-Q. Plays a central role in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by phosphorylating UPF1/RENT1. Recruited by release factors to stalled ribosomes together with SMG8 and SMG9 (forming the SMG1C protein kinase complex), and UPF1 to form the transient SURF (SMG1-UPF1-eRF1-eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Also acts as a genotoxic stress-activated protein kinase that displays some functional overlap with ATM. Can phosphorylate p53/TP53 and is required for optimal p53/TP53 activation after cellular exposure to genotoxic stress. Its depletion leads to spontaneous DNA damage and increased sensitivity to ionizing radiation (IR). May activate PRKCI but not PRKCZ.

> Gene Ontology [ TOP ]
Biological Process	GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay GO:0000723 telomere maintenance GO:0000956 nuclear-transcribed mRNA catabolic process GO:0006401 RNA catabolic process GO:0006402 mRNA catabolic process GO:0006403 RNA localization GO:0006405 RNA export from nucleus GO:0006406 mRNA export from nucleus GO:0006644 phospholipid metabolic process GO:0006650 glycerophospholipid metabolic process GO:0006913 nucleocytoplasmic transport GO:0015931 nucleobase-containing compound transport GO:0018105 peptidyl-serine phosphorylation GO:0018209 peptidyl-serine modification GO:0019439 aromatic compound catabolic process GO:0030258 lipid modification GO:0032200 telomere organization GO:0034655 nucleobase-containing compound catabolic process GO:0044270 cellular nitrogen compound catabolic process GO:0046486 glycerolipid metabolic process GO:0046488 phosphatidylinositol metabolic process GO:0046700 heterocycle catabolic process GO:0046777 protein autophosphorylation GO:0046834 lipid phosphorylation GO:0046854 phosphatidylinositol phosphorylation GO:0050657 nucleic acid transport GO:0050658 RNA transport GO:0051028 mRNA transport GO:0051168 nuclear export GO:0051169 nuclear transport GO:0051236 establishment of RNA localization GO:0060249 anatomical structure homeostasis GO:0071166 ribonucleoprotein complex localization GO:0071426 ribonucleoprotein complex export from nucleus GO:0071427 mRNA-containing ribonucleoprotein complex export from nucleus GO:1901361 organic cyclic compound catabolic process
Molecular Function	GO:0004674 protein serine/threonine kinase activity GO:0042162 telomeric DNA binding
Cellular Component	-

> KEGG and Reactome Pathway [ TOP ]
KEGG	hsa03015 mRNA surveillance pathway
Reactome	R-HSA-74160: Gene Expression R-HSA-975957: Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) R-HSA-927802: Nonsense-Mediated Decay (NMD)

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Literatures that report relations between SMG1 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 [ TOP ]
There is no record.

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
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

[ TOP ]

Statistical results of SMG1 in screening data sets for detecting immune reponses.

PMID	Screening System	Cancer Type	Cell Line	Data Set	Statistical Results	Relation to immunity
29301958	CRISPR-Cas9	melanoma	B16F10	Pmel-1 T cell	NA/NS	NA/NS
29301958	CRISPR-Cas9	melanoma	B16F10	OT-1 T cell	NA/NS	NA/NS
28783722	CRISPR-Cas9	melanoma	Mel624	2CT-CRISPR	NA/NS	NA/NS
28723893	CRISPR-Cas9	melanoma	B16	GVAX+Anti-PD1	NA/NS	NA/NS
28723893	CRISPR-Cas9	melanoma	B16	GVAX	STARS Score: 3.54; FDR: 0.046	Resistant to T cell-mediated killing
25691366	RNAi	Breast cancer	MCF7	Luc-CTL assay	NA/NS	NA/NS
24476824	shRNA	melanoma	B16	Primary screen	NA/NS	NA/NS
24476824	shRNA	melanoma	B16	Secondary screen	NA/NS	NA/NS

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
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

[ TOP ]

Points in the above scatter plot represent the expression difference of SMG1 in various data sets.

No	PMID	Cancer type	Group	Drug	# Res	# NRes	Log2 (Fold Change)	P value
1	26997480	Melanoma	all	Anti-PD-1 (pembrolizumab and nivolumab)	14	12	-0.152	0.607
2	26997480	Melanoma	MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	6	5	0.092	0.948
3	26997480	Melanoma	non-MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	8	7	-0.324	0.737
4	28552987	Urothelial cancer	all	Anti-PD-L1 (atezolizumab)	9	16	0.158	0.587
5	28552987	Urothelial cancer	smoking	Anti-PD-L1 (atezolizumab)	5	9	0.183	0.951
6	28552987	Urothelial cancer	non-smoking	Anti-PD-L1 (atezolizumab)	4	7	0.128	0.974
7	29033130	Melanoma	all	Anti-PD-1 (nivolumab)	26	23	0.211	0.637
8	29033130	Melanoma	NIV3-PROG	Anti-PD-1 (nivolumab)	15	11	0.241	0.907
9	29033130	Melanoma	NIV3-NAIVE	Anti-PD-1 (nivolumab)	11	12	0.198	0.931
10	29301960	Clear cell renal cell carcinoma (ccRCC)	all	Anti-PD-1 (nivolumab)	4	8	0.034	0.975
11	29301960	Clear cell renal cell carcinoma (ccRCC)	VEGFRi	Anti-PD-1 (nivolumab)	2	0	0	1
12	29301960	Clear cell renal cell carcinoma (ccRCC)	non-VEGFRi	Anti-PD-1 (nivolumab)	2	8	0.864	0.553
13	29443960	Urothelial cancer	all	Anti-PD-L1 (atezolizumab)	68	230	0.062	0.172

> Mutation difference between responders and non-responders

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Points in the above scatter plot represent the mutation difference of SMG1 in various data sets.

No	PMID	Cancer type	Group	Drug	# Res	# NRes	% Mut/Res	% Mut/NRes	% Diff (R vs NR)	Pval
1	25765070	Non-small cell lung cancer (NSCLC)	all	Anti-PD-1 (pembrolizumab)	14	17	14.3	0	14.3	0.196
2	25765070	Non-small cell lung cancer (NSCLC)	smoking	Anti-PD-1 (pembrolizumab)	10	3	20	0	20	1
3	25765070	Non-small cell lung cancer (NSCLC)	non-smoking	Anti-PD-1 (pembrolizumab)	4	14	0	0	0	1
4	26359337	Melanoma	all	Anti-CTLA-4 (ipilimumab)	27	73	11.1	4.1	7	0.339
5	26359337	Melanoma	BRAFi	Anti-CTLA-4 (ipilimumab)	0	14	0	0	0	1
6	26359337	Melanoma	non-BRAFi	Anti-CTLA-4 (ipilimumab)	27	59	11.1	5.1	6	0.373
7	26997480	Melanoma	all	Anti-PD-1 (pembrolizumab and nivolumab)	21	17	9.5	5.9	3.6	1
8	26997480	Melanoma	MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	8	6	12.5	16.7	-4.2	1
9	26997480	Melanoma	non-MAPKi	Anti-PD-1 (pembrolizumab and nivolumab)	13	11	7.7	0	7.7	1
10	28552987	Urothelial cancer	all	Anti-PD-L1 (atezolizumab)	9	16	0	18.8	-18.8	0.28
11	28552987	Urothelial cancer	smoking	Anti-PD-L1 (atezolizumab)	5	9	0	11.1	-11.1	1
12	28552987	Urothelial cancer	non-smoking	Anti-PD-L1 (atezolizumab)	4	7	0	28.6	-28.6	0.491
13	29033130	Melanoma	all	Anti-PD-1 (nivolumab)	38	27	5.3	7.4	-2.1	1
14	29033130	Melanoma	NIV3-PROG	Anti-PD-1 (nivolumab)	22	13	4.5	15.4	-10.9	0.541
15	29033130	Melanoma	NIV3-NAIVE	Anti-PD-1 (nivolumab)	16	14	6.2	0	6.2	1
16	29301960	Clear cell renal cell carcinoma (ccRCC)	all	Anti-PD-1 (nivolumab)	11	13	0	0	0	1
17	29301960	Clear cell renal cell carcinoma (ccRCC)	VEGFRi	Anti-PD-1 (nivolumab)	6	1	0	0	0	1
18	29301960	Clear cell renal cell carcinoma (ccRCC)	non-VEGFRi	Anti-PD-1 (nivolumab)	5	12	0	0	0	1

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of SMG1. 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 [ TOP ]

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of SMG1. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by SMG1. > Immunoinhibitor > Immunostimulator > MHC molecule

> Immunoinhibitor [ TOP ]

> Immunostimulator [ TOP ]

> MHC molecule [ TOP ]

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of SMG1. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene. > Chemokine > Receptor

> Chemokine [ TOP ]

> Receptor [ TOP ]

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Distribution of SMG1 expression across immune and molecular subtypes. > Immune subtype > Molecular subtype

> Immune subtype [ TOP ]

> Molecular subtype [ TOP ]

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Associations between SMG1 and clinical features. > Overall survival analysis > Cancer stage > Tumor grade

> Overall survival [ TOP ]

> Stage [ TOP ]

> Grade [ TOP ]

Summary
Symbol	SMG1
Name	SMG1 phosphatidylinositol 3-kinase-related kinase
Aliases	KIAA0421; phosphatidylinositol 3-kinase-related kinase; smg-1 homolog, phosphatidylinositol 3-kinase-related ......
Chromosomal Location	16p12.3
External Links	HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content	Drugs targeting SMG1 collected from DrugBank database.

> Drugs from DrugBank database [ TOP ]
There is no record.

Browse SMG1