SND1 staphylococcal nuclease and tudor domain containing 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SND1provided by HGNC
Official Full Name: staphylococcal nuclease and tudor domain containing 1provided by HGNC
Primary source: HGNC:HGNC:30646
See related: Ensembl:ENSG00000197157 MIM:602181; AllianceGenome:HGNC:30646
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: TSN; p100; TDRD11; Tudor-SN
Summary: This gene encodes a transcriptional co-activator that interacts with the acidic domain of Epstein-Barr virus nuclear antigen 2 (EBNA 2), a transcriptional activator that is required for B-lymphocyte transformation. Other transcription factors that interact with this protein are signal transducers and activators of transcription, STATs. This protein is also thought to be essential for normal cell growth. A similar protein in mammals and other organisms is a component of the RNA-induced silencing complex (RISC). [provided by RefSeq, Jul 2016]
Expression: Ubiquitous expression in placenta (RPKM 45.9), thyroid (RPKM 41.6) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 7q32.1

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	7	NC_000007.14 (127652194..128092593)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	7	NC_060931.1 (128963877..129404259)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	7	NC_000007.13 (127292248..127732645)

Chromosome 7 - NC_000007.14 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

A Study on the Binding Mechanism and the Impact of Key Residue Mutations between SND1 and MTDH Peptide through Molecular Dynamics Simulations.
Title: A Study on the Binding Mechanism and the Impact of Key Residue Mutations between SND1 and MTDH Peptide through Molecular Dynamics Simulations.
Hypomethylation-associated LINC00987 downregulation induced lung adenocarcinoma progression by inhibiting the phosphorylation-mediated degradation of SND1.
Title: Hypomethylation-associated LINC00987 downregulation induced lung adenocarcinoma progression by inhibiting the phosphorylation-mediated degradation of SND1.
[Effect of Staphylococcal Nuclease and Tudor Domain Containing 1/SLC7A11 on the Occurrence and Development of Osteosarcoma by Inhibiting Ferroptosis].
Title: [Effect of Staphylococcal Nuclease and Tudor Domain Containing 1/SLC7A11 on the Occurrence and Development of Osteosarcoma by Inhibiting Ferroptosis].
SNHG1, interacting with SND1, contributes to sorafenib resistance of liver cancer cells by increasing m6A-mediated SLC7A11 expression and promoting aerobic glycolysis.
Title: SNHG1, interacting with SND1, contributes to sorafenib resistance of liver cancer cells by increasing m6A-mediated SLC7A11 expression and promoting aerobic glycolysis.
Hsa_circ_0001583 fuels bladder cancer metastasis by promoting staphylococcal nuclease and tudor domain containing 1-mediated MicroRNA decay.
Title: Hsa_circ_0001583 fuels bladder cancer metastasis by promoting staphylococcal nuclease and tudor domain containing 1-mediated MicroRNA decay.
The chromatin architectural regulator SND1 mediates metastasis in triple-negative breast cancer by promoting CDH1 gene methylation.
Title: The chromatin architectural regulator SND1 mediates metastasis in triple-negative breast cancer by promoting CDH1 gene methylation.
SND1 binds SARS-CoV-2 negative-sense RNA and promotes viral RNA synthesis through NSP9.
Title: SND1 binds SARS-CoV-2 negative-sense RNA and promotes viral RNA synthesis through NSP9.
Epigenetically silenced lncRNA SNAI3-AS1 promotes ferroptosis in glioma via perturbing the m[6]A-dependent recognition of Nrf2 mRNA mediated by SND1.
Title: Epigenetically silenced lncRNA SNAI3-AS1 promotes ferroptosis in glioma via perturbing the m(6)A-dependent recognition of Nrf2 mRNA mediated by SND1.
Inhibition of SND1 overcomes chemoresistance in bladder cancer cells by promoting ferroptosis.
Title: Inhibition of SND1 overcomes chemoresistance in bladder cancer cells by promoting ferroptosis.
N-Glycosylation on Asn50 of SND1 Is Required for Glioma U87 Cell Proliferation and Metastasis.
Title: N-Glycosylation on Asn50 of SND1 Is Required for Glioma U87 Cell Proliferation and Metastasis.

Submit: New GeneRIF Correction See all GeneRIFs (71)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study in a Chinese population identifies a susceptibility locus for type 2 diabetes at 7q32 near PAX4. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Pr55(Gag)	gag	Interaction of HIV-1 Gag with staphylococcal nuclease and tudor domain containing 1 (SND1) is identified in a series of six affinity purification/mass spectrometry screens	PubMed
retropepsin	gag-pol	Positional proteomics analysis identifies the cleavage of human staphylococcal nuclease and tudor domain containing 1 (SND1) at amino acid residues 670-671 by the HIV-1 protease	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH12231 (e-PCR)
- UniSTS:258

WI-15275 (e-PCR)
- UniSTS:57355

G63341 (e-PCR)
- UniSTS:140308

GDB:4585141 (e-PCR)
- UniSTS:4885

STS-T91284 (e-PCR)
- UniSTS:40985

D7S2940 (e-PCR)
- UniSTS:6701

RH120514 (e-PCR)
- UniSTS:133679

GDB:1318687 (e-PCR)
- UniSTS:60720

STS-H23117 (e-PCR)
- UniSTS:9556

SHGC-35064 (e-PCR)
- UniSTS:29801

SHGC-58325 (e-PCR)
- UniSTS:94315

D7S2501 (e-PCR), detects polymorphism
- UniSTS:31344

WI-14761 (e-PCR)
- UniSTS:45699

A008Q29 (e-PCR)
- UniSTS:75927

RH18311 (e-PCR)
- UniSTS:44960

RH47485 (e-PCR)
- UniSTS:39589

G17149 (e-PCR)
- UniSTS:64166

SHGC-152675 (e-PCR)
- UniSTS:177578

G65517 (e-PCR)
- UniSTS:166571

D7S2943 (e-PCR)
- UniSTS:5551

A009A30 (e-PCR)
- UniSTS:1459

RH47193 (e-PCR)
- UniSTS:36538

D7S2501 (e-PCR), detects polymorphism
- UniSTS:20414

RH46056 (e-PCR)
- UniSTS:43717

C016YC9 (e-PCR)
- UniSTS:29645

D7S2389 (e-PCR)
- UniSTS:72662

G65703 (e-PCR)
- UniSTS:225497

RH122124 (e-PCR)
- UniSTS:134876

D7S2081E (e-PCR)
- UniSTS:15334

D7S504 (e-PCR)
- UniSTS:42987

D7S504 (e-PCR)
- UniSTS:68334

D7S2823 (e-PCR)
- UniSTS:3566

GDB:4585650 (e-PCR)
- UniSTS:64242

SHGC-31025 (e-PCR)
- UniSTS:70909

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RISC complex binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	HDA more info	PubMed
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA endonuclease activity	IDA Inferred from Direct Assay more info	PubMed
enables cadherin binding	HDA more info	PubMed
enables endonuclease activity	IDA Inferred from Direct Assay more info	PubMed
enables endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters	IEA Inferred from Electronic Annotation more info
enables nuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription coregulator activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in mRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in miRNA catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in osteoblast differentiation	HDA more info	PubMed
involved_in regulation of cell cycle process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulatory ncRNA-mediated gene silencing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of RNAi effector complex	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info
located_in cytosol	TAS Traceable Author Statement more info
located_in dense body	IEA Inferred from Electronic Annotation more info
located_in extracellular exosome	HDA more info	PubMed
located_in melanosome	IEA Inferred from Electronic Annotation more info
located_in membrane	HDA more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: staphylococcal nuclease domain-containing protein 1

Names: EBNA2 coactivator p100; testis tissue sperm-binding protein Li 82P; tudor domain-containing protein 11

NP_055205.2

EC 3.1.31.1

XP_016867476.1

EC 3.1.31.1

XP_054213878.1

EC 3.1.31.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_051199.1 RefSeqGene

Range

5206..445605

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_014390.4 → NP_055205.2 staphylococcal nuclease domain-containing protein 1

See identical proteins and their annotated locations for NP_055205.2

Status: REVIEWED

Source sequence(s)

BC017180, BE799345, BQ217773

Consensus CDS

CCDS34747.1

UniProtKB/Swiss-Prot

Q13122, Q7KZF4, Q96AG0

UniProtKB/TrEMBL

A0A140VK49, B3KU67

Related

ENSP00000346762.3, ENST00000354725.8

Conserved Domains (5) summary

smart00333
Location:728 → 784

TUDOR; Tudor domain

smart00318
Location:21 → 166

SNc; Staphylococcal nuclease homologues

cd00175
Location:26 → 166

SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.

pfam00567
Location:677 → 799

TUDOR; Tudor domain

cl00140
Location:844 → 895

SNc; Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.